Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC ================================================================================ ================================================================================ Starting Configure Run at Tue Jun 13 12:01:57 2017 Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions -start-in-debugger --download-metis --download-parmetis --download-superlu_dist --with-fortran-datatypes --with-precison=double --with-debugging=0 --with-cc=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --with-fc=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --with-cxx=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --with-shared-libraries=0 -fPIC --download-fblaslapack=1 --with-fortran --with-fortran-interfaces --with-shared-libraries=1 --with-cmake=/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake --with-netcdf-dir= --download-zlib --with-hdf5-dir=/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/ --with-netcdf-dir=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/ COPTFLAGS=-O3 FOPTFLAGS=-O3 Working directory: /global/home/thl/petsc Machine platform: ('Linux', 'fram-login-5-2.local', '2.6.32-642.11.1.el6.x86_64', '#1 SMP Wed Oct 26 10:25:23 EDT 2016', 'x86_64', 'x86_64') Python version: 2.7.11 (default, Jun 11 2016, 16:29:00) [GCC 4.9.3] ================================================================================ Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC ================================================================================ TEST configureExternalPackagesDir from config.framework(/global/home/thl/petsc/config/BuildSystem/config/framework.py:840) TESTING: configureExternalPackagesDir from config.framework(config/BuildSystem/config/framework.py:840) ================================================================================ TEST configureDebuggers from config.utilities.debuggers(/global/home/thl/petsc/config/BuildSystem/config/utilities/debuggers.py:22) TESTING: configureDebuggers from config.utilities.debuggers(config/BuildSystem/config/utilities/debuggers.py:22) Find a default debugger and determine its arguments Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/gdb...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/gdb...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gdb...not found Checking for program /usr/lib64/qt-3.3/bin/gdb...not found Checking for program /usr/local/bin/gdb...not found Checking for program /bin/gdb...not found Checking for program /usr/bin/gdb...found Defined make macro "GDB" to "/usr/bin/gdb" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/dbx...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/dbx...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/dbx...not found Checking for program /usr/lib64/qt-3.3/bin/dbx...not found Checking for program /usr/local/bin/dbx...not found Checking for program /bin/dbx...not found Checking for program /usr/bin/dbx...not found Checking for program /usr/local/sbin/dbx...not found Checking for program /usr/sbin/dbx...not found Checking for program /sbin/dbx...not found Checking for program /opt/ganglia/bin/dbx...not found Checking for program /opt/ganglia/sbin/dbx...not found Checking for program /opt/ibutils/bin/dbx...not found Checking for program /usr/java/latest/bin/dbx...not found Checking for program /opt/maui/bin/dbx...not found Checking for program /opt/torque/bin/dbx...not found Checking for program /opt/torque/sbin/dbx...not found Checking for program /opt/rocks/bin/dbx...not found Checking for program /opt/rocks/sbin/dbx...not found Checking for program /opt/condor/bin/dbx...not found Checking for program /opt/condor/sbin/dbx...not found Checking for program /home/thl/dbx...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/xdb...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/xdb...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/xdb...not found Checking for program /usr/lib64/qt-3.3/bin/xdb...not found Checking for program /usr/local/bin/xdb...not found Checking for program /bin/xdb...not found Checking for program /usr/bin/xdb...not found Checking for program /usr/local/sbin/xdb...not found Checking for program /usr/sbin/xdb...not found Checking for program /sbin/xdb...not found Checking for program /opt/ganglia/bin/xdb...not found Checking for program /opt/ganglia/sbin/xdb...not found Checking for program /opt/ibutils/bin/xdb...not found Checking for program /usr/java/latest/bin/xdb...not found Checking for program /opt/maui/bin/xdb...not found Checking for program /opt/torque/bin/xdb...not found Checking for program /opt/torque/sbin/xdb...not found Checking for program /opt/rocks/bin/xdb...not found Checking for program /opt/rocks/sbin/xdb...not found Checking for program /opt/condor/bin/xdb...not found Checking for program /opt/condor/sbin/xdb...not found Checking for program /home/thl/xdb...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/dsymutil...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/dsymutil...not found Checking for program /usr/lib64/qt-3.3/bin/dsymutil...not found Checking for program /usr/local/bin/dsymutil...not found Checking for program /bin/dsymutil...not found Checking for program /usr/bin/dsymutil...not found Checking for program /usr/local/sbin/dsymutil...not found Checking for program /usr/sbin/dsymutil...not found Checking for program /sbin/dsymutil...not found Checking for program /opt/ganglia/bin/dsymutil...not found Checking for program /opt/ganglia/sbin/dsymutil...not found Checking for program /opt/ibutils/bin/dsymutil...not found Checking for program /usr/java/latest/bin/dsymutil...not found Checking for program /opt/maui/bin/dsymutil...not found Checking for program /opt/torque/bin/dsymutil...not found Checking for program /opt/torque/sbin/dsymutil...not found Checking for program /opt/rocks/bin/dsymutil...not found Checking for program /opt/rocks/sbin/dsymutil...not found Checking for program /opt/condor/bin/dsymutil...not found Checking for program /opt/condor/sbin/dsymutil...not found Checking for program /home/thl/dsymutil...not found Defined make macro "DSYMUTIL" to "true" Defined "USE_GDB_DEBUGGER" to "1" ================================================================================ TEST configureGit from config.sourceControl(/global/home/thl/petsc/config/BuildSystem/config/sourceControl.py:24) TESTING: configureGit from config.sourceControl(config/BuildSystem/config/sourceControl.py:24) Find the Git executable Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/git...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/git...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/git...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/git...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/git...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/git...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/git...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/git...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/git...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/git...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/git...not found Checking for program /usr/lib64/qt-3.3/bin/git...not found Checking for program /usr/local/bin/git...not found Checking for program /bin/git...not found Checking for program /usr/bin/git...found Defined make macro "GIT" to "git" Executing: git --version stdout: git version 1.7.1 ================================================================================ TEST configureMercurial from config.sourceControl(/global/home/thl/petsc/config/BuildSystem/config/sourceControl.py:35) TESTING: configureMercurial from config.sourceControl(config/BuildSystem/config/sourceControl.py:35) Find the Mercurial executable Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/hg...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/hg...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/hg...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/hg...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/hg...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/hg...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/hg...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/hg...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/hg...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/hg...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/hg...not found Checking for program /usr/lib64/qt-3.3/bin/hg...not found Checking for program /usr/local/bin/hg...not found Checking for program /bin/hg...not found Checking for program /usr/bin/hg...found Defined make macro "HG" to "hg" Executing: hg version -q stdout: Mercurial Distributed SCM (version 1.4) ================================================================================ TEST configureCLanguage from PETSc.options.languages(/global/home/thl/petsc/config/PETSc/options/languages.py:27) TESTING: configureCLanguage from PETSc.options.languages(config/PETSc/options/languages.py:27) Choose whether to compile the PETSc library using a C or C++ compiler C language is C Defined "CLANGUAGE_C" to "1" ================================================================================ TEST configureDirectories from PETSc.options.petscdir(/global/home/thl/petsc/config/PETSc/options/petscdir.py:23) TESTING: configureDirectories from PETSc.options.petscdir(config/PETSc/options/petscdir.py:23) Checks PETSC_DIR and sets if not set Version Information: #define PETSC_VERSION_RELEASE 0 #define PETSC_VERSION_MAJOR 3 #define PETSC_VERSION_MINOR 7 #define PETSC_VERSION_SUBMINOR 6 #define PETSC_VERSION_PATCH 0 #define PETSC_VERSION_DATE "unknown" #define PETSC_VERSION_GIT "unknown" #define PETSC_VERSION_DATE_GIT "unknown" #define PETSC_VERSION_(MAJOR,MINOR,SUBMINOR) \ #define PETSC_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ #define PETSC_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ #define PETSC_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ #define PETSC_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ Defined make macro "DIR" to "/home/thl/petsc" ================================================================================ TEST getDatafilespath from PETSc.options.dataFilesPath(/global/home/thl/petsc/config/PETSc/options/dataFilesPath.py:29) TESTING: getDatafilespath from PETSc.options.dataFilesPath(config/PETSc/options/dataFilesPath.py:29) Checks what DATAFILESPATH should be ================================================================================ TEST configureInstallationMethod from PETSc.options.petscclone(/global/home/thl/petsc/config/PETSc/options/petscclone.py:20) TESTING: configureInstallationMethod from PETSc.options.petscclone(config/PETSc/options/petscclone.py:20) bin/maint exists. This appears to be a repository clone .git directory exists Executing: cd /home/thl/petsc && git describe --match "v*" stdout: v3.7.6-4108-g8c405a3 Executing: cd /home/thl/petsc && git log -1 --pretty=format:%H stdout: 8c405a35e3463db34467c44b5b94e7b81d895f6d Executing: cd /home/thl/petsc && git log -1 --pretty=format:%ci stdout: 2017-06-12 10:08:46 -0500 Executing: cd /home/thl/petsc && git branch stdout: * master Defined "VERSION_GIT" to ""v3.7.6-4108-g8c405a3"" Defined "VERSION_DATE_GIT" to ""2017-06-12 10:08:46 -0500"" Defined "VERSION_BRANCH_GIT" to ""master"" ================================================================================ TEST configureArchitecture from PETSc.options.arch(/global/home/thl/petsc/config/PETSc/options/arch.py:36) TESTING: configureArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:36) Checks PETSC_ARCH and sets if not set Defined "ARCH" to ""fast_double"" ================================================================================ TEST setInstallDir from PETSc.options.installDir(/global/home/thl/petsc/config/PETSc/options/installDir.py:35) TESTING: setInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:35) setup installDir to either prefix or if that is not set to PETSC_DIR/PETSC_ARCH ================================================================================ TEST saveReconfigure from PETSc.options.installDir(/global/home/thl/petsc/config/PETSc/options/installDir.py:75) TESTING: saveReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:75) ================================================================================ TEST cleanInstallDir from PETSc.options.installDir(/global/home/thl/petsc/config/PETSc/options/installDir.py:68) TESTING: cleanInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:68) ================================================================================ TEST configureInstallDir from PETSc.options.installDir(/global/home/thl/petsc/config/PETSc/options/installDir.py:52) TESTING: configureInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:52) Makes installDir subdirectories if it does not exist for both prefix install location and PETSc work install location Changed persistence directory to /home/thl/petsc/fast_double/lib/petsc/conf ================================================================================ TEST restoreReconfigure from PETSc.options.installDir(/global/home/thl/petsc/config/PETSc/options/installDir.py:88) TESTING: restoreReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:88) ================================================================================ TEST setExternalPackagesDir from PETSc.options.externalpackagesdir(/global/home/thl/petsc/config/PETSc/options/externalpackagesdir.py:15) TESTING: setExternalPackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:15) ================================================================================ TEST cleanExternalpackagesDir from PETSc.options.externalpackagesdir(/global/home/thl/petsc/config/PETSc/options/externalpackagesdir.py:22) TESTING: cleanExternalpackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:22) ================================================================================ TEST printEnvVariables from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1604) TESTING: printEnvVariables from config.setCompilers(config/BuildSystem/config/setCompilers.py:1604) **** printenv **** EBVERSIONNCURSES=6.0 EBEXTSLISTPYTHON=setuptools-18.7.1,pip-7.1.2,nose-1.3.7,numpy-1.10.1,scipy-0.16.1,blist-1.3.6,mpi4py-1.3.1,paycheck-1.0.2,argparse-1.4.0,pbr-1.8.1,lockfile-0.12.2,Cython-0.23.4,six-1.10.0,dateutil-2.4.2,deap-1.0.2,decorator-4.0.4,arff-2.1.0,pycrypto-2.6.1,ecdsa-0.13,paramiko-1.16.0,pyparsing-2.0.6,netifaces-0.10.4,netaddr-0.7.18,funcsigs-0.4,mock-1.3.0,pytz-2015.7,pandas-0.17.1,enum34-1.1.2,bitstring-3.1.3,virtualenv-14.0.5 EBVERSIONNUMACTL=2.0.11 EBROOTCMAKE=/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a EBVERSIONPYTHON=2.7.11 MODULESHOME=/usr/share/Modules EBROOTMPI4PY=/share/apps/software/rhel6/software/mpi4py/2.0.0-foss-2016a-Python-2.7.11 EBDEVELSCIPY=/share/apps/software/rhel6/software/scipy/0.17.0-foss-2016a-Python-2.7.11/easybuild/scipy-0.17.0-foss-2016a-Python-2.7.11-easybuild-devel SHELL=/bin/bash EBDEVELFFTW=/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/easybuild/FFTW-3.3.4-gompi-2016a-easybuild-devel EBDEVELGOMPI=/share/apps/software/rhel6/software/gompi/2016a/easybuild/gompi-2016a-easybuild-devel HISTSIZE=1000 CURL_INCLUDES=/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/include MANPATH=/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/share/man:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/share/man:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/share/man:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/share/man:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/share/man:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/share/man:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/man:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/share/man:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/share/man:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/man:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/share/man:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/share/man:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/share/man:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/man:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/share/man:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/share/man:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/share/man:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/share/man:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/share/man:/share/apps/software/rhel6/software/GCCcore/4.9.3/share/man:/opt/torque/man: EBROOTBINUTILS=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3 JAVA_HOME=/usr/java/latest EBDEVELGCCCORE=/share/apps/software/rhel6/software/GCCcore/4.9.3/easybuild/GCCcore-4.9.3-easybuild-devel EBROOTHWLOC=/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25 EBROOTZLIB=/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a EBROOTLIBREADLINE=/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a EBROOTHDF5=/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a LC_CTYPE=en_US.UTF-8 EBVERSIONOPENMPI=1.10.2 EBVERSIONLIBREADLINE=6.3 EBDEVELFOSS=/share/apps/software/rhel6/software/foss/2016a/easybuild/foss-2016a-easybuild-devel EBROOTFREETYPE=/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a EBDEVELLIBPNG=/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/easybuild/libpng-1.6.21-foss-2016a-easybuild-devel EBROOTNETCDF4MINPYTHON=/share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11 EBVERSIONFFTW=3.3.4 EBDEVELNCURSES=/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/easybuild/ncurses-6.0-foss-2016a-easybuild-devel EBDEVELMPI4PY=/share/apps/software/rhel6/software/mpi4py/2.0.0-foss-2016a-Python-2.7.11/easybuild/mpi4py-2.0.0-foss-2016a-Python-2.7.11-easybuild-devel HOSTNAME=fram-login-5-2.local EBVERSIONGCCCORE=4.9.3 EBDEVELNUMACTL=/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/easybuild/numactl-2.0.11-GCC-4.9.3-2.25-easybuild-devel PETSC_ARCH=fast_double EBROOTCURL=/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a MAIL=/var/spool/mail/thl LS_COLORS=rs=0:di=38;5;27:ln=38;5;51:mh=44;38;5;15:pi=40;38;5;11:so=38;5;13:do=38;5;5:bd=48;5;232;38;5;11:cd=48;5;232;38;5;3:or=48;5;232;38;5;9:mi=05;48;5;232;38;5;15:su=48;5;196;38;5;15:sg=48;5;11;38;5;16:ca=48;5;196;38;5;226:tw=48;5;10;38;5;16:ow=48;5;10;38;5;21:st=48;5;21;38;5;15:ex=38;5;34:*.tar=38;5;9:*.tgz=38;5;9:*.arj=38;5;9:*.taz=38;5;9:*.lzh=38;5;9:*.lzma=38;5;9:*.tlz=38;5;9:*.txz=38;5;9:*.zip=38;5;9:*.z=38;5;9:*.Z=38;5;9:*.dz=38;5;9:*.gz=38;5;9:*.lz=38;5;9:*.xz=38;5;9:*.bz2=38;5;9:*.tbz=38;5;9:*.tbz2=38;5;9:*.bz=38;5;9:*.tz=38;5;9:*.deb=38;5;9:*.rpm=38;5;9:*.jar=38;5;9:*.rar=38;5;9:*.ace=38;5;9:*.zoo=38;5;9:*.cpio=38;5;9:*.7z=38;5;9:*.rz=38;5;9:*.jpg=38;5;13:*.jpeg=38;5;13:*.gif=38;5;13:*.bmp=38;5;13:*.pbm=38;5;13:*.pgm=38;5;13:*.ppm=38;5;13:*.tga=38;5;13:*.xbm=38;5;13:*.xpm=38;5;13:*.tif=38;5;13:*.tiff=38;5;13:*.png=38;5;13:*.svg=38;5;13:*.svgz=38;5;13:*.mng=38;5;13:*.pcx=38;5;13:*.mov=38;5;13:*.mpg=38;5;13:*.mpeg=38;5;13:*.m2v=38;5;13:*.mkv=38;5;13:*.ogm=38;5;13:*.mp4=38;5;13:*.m4v=38;5;13:*.mp4v=38;5;13:*.vob=38;5;13:*.qt=38;5;13:*.nuv=38;5;13:*.wmv=38;5;13:*.asf=38;5;13:*.rm=38;5;13:*.rmvb=38;5;13:*.flc=38;5;13:*.avi=38;5;13:*.fli=38;5;13:*.flv=38;5;13:*.gl=38;5;13:*.dl=38;5;13:*.xcf=38;5;13:*.xwd=38;5;13:*.yuv=38;5;13:*.cgm=38;5;13:*.emf=38;5;13:*.axv=38;5;13:*.anx=38;5;13:*.ogv=38;5;13:*.ogx=38;5;13:*.aac=38;5;45:*.au=38;5;45:*.flac=38;5;45:*.mid=38;5;45:*.midi=38;5;45:*.mka=38;5;45:*.mp3=38;5;45:*.mpc=38;5;45:*.ogg=38;5;45:*.ra=38;5;45:*.wav=38;5;45:*.axa=38;5;45:*.oga=38;5;45:*.spx=38;5;45:*.xspf=38;5;45: EBVERSIONLIBPNG=1.6.21 CONDOR_CONFIG=/opt/condor/etc/condor_config SSH_ASKPASS=/usr/libexec/openssh/gnome-ssh-askpass LC_NUMERIC=en_US.UTF-8 LESSOPEN=||/usr/bin/lesspipe.sh %s EBVERSIONNETCDF=4.4.0 EBROOTPYTHON=/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a EBVERSIONBZIP2=1.0.6 USER= EBVERSIONSCIPY=0.17.0 EBDEVELNETCDF=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/easybuild/netCDF-4.4.0-foss-2016a-easybuild-devel EBDEVELSQLITE=/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/easybuild/SQLite-3.9.2-foss-2016a-easybuild-devel SHLVL=2 EBDEVELZLIB=/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/easybuild/zlib-1.2.8-foss-2016a-easybuild-devel EBVERSIONNETCDF4MINPYTHON=1.2.6 DISPLAY=localhost:27.0 EBROOTNCURSES=/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a EBROOTGMP=/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a PETSC_DIR=/home/thl/petsc EBDEVELBINUTILS=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/easybuild/binutils-2.25-GCCcore-4.9.3-easybuild-devel TARGETS=nid00135 nid00128 nid00131 nid00136 nid00139 nid00008 nid00011 nid00012 EBVERSIONNETCDFMINFORTRAN=4.4.3 EBROOTNETCDF=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a EBDEVELCMAKE=/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/easybuild/CMake-3.4.3-foss-2016a-easybuild-devel EBROOTSZIP=/share/apps/software/rhel6/software/Szip/2.1-foss-2016a PKG_CONFIG_PATH=/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/pkgconfig:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/pkgconfig:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/pkgconfig:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/pkgconfig:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/pkgconfig _=./configure MODULEPATH=/usr/share/Modules/modulefiles:/etc/modulefiles:/share/apps/software/rhel6/modules/chem:/share/apps/software/rhel6/modules/compiler:/share/apps/software/rhel6/modules/compilers:/share/apps/software/rhel6/modules/data:/share/apps/software/rhel6/modules/devel:/share/apps/software/rhel6/modules/geo:/share/apps/software/rhel6/modules/lang:/share/apps/software/rhel6/modules/lib:/share/apps/software/rhel6/modules/math:/share/apps/software/rhel6/modules/mpi:/share/apps/software/rhel6/modules/numlib:/share/apps/software/rhel6/modules/phys:/share/apps/software/rhel6/modules/system:/share/apps/software/rhel6/modules/toolchain:/share/apps/software/rhel6/modules/tools:/share/apps/software/rhel6/modules/vis SSH_CONNECTION=131.215.65.54 46041 131.215.64.69 22 EBVERSIONGMP=6.1.0 EBVERSIONMPI4PY=2.0.0 QTINC=/usr/lib64/qt-3.3/include EBROOTSCIPY=/share/apps/software/rhel6/software/scipy/0.17.0-foss-2016a-Python-2.7.11 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EBDEVELMATPLOTLIB=/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/easybuild/matplotlib-1.5.1-foss-2016a-Python-2.7.11-easybuild-devel HOME=/home/thl EBROOTMATPLOTLIB=/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11 EBVERSIONFREETYPE=2.6.2 EBROOTFFTW=/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a EBDEVELHWLOC=/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/easybuild/hwloc-1.11.2-GCC-4.9.3-2.25-easybuild-devel EBDEVELBZIP2=/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/easybuild/bzip2-1.0.6-foss-2016a-easybuild-devel EBROOTLIBPNG=/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a EBDEVELLIBREADLINE=/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/easybuild/libreadline-6.3-foss-2016a-easybuild-devel EBDEVELFREETYPE=/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/easybuild/freetype-2.6.2-foss-2016a-easybuild-devel LC_ALL=en_US.UTF-8 EBROOTGCCCORE=/share/apps/software/rhel6/software/GCCcore/4.9.3 LC_TIME=en_US.UTF-8 EBDEVELPYTHON=/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/easybuild/Python-2.7.11-foss-2016a-easybuild-devel ANT_HOME=/opt/rocks LOADEDMODULES=GCCcore/4.9.3:binutils/2.25-GCCcore-4.9.3:GCC/4.9.3-2.25:numactl/2.0.11-GCC-4.9.3-2.25:hwloc/1.11.2-GCC-4.9.3-2.25:OpenMPI/1.10.2-GCC-4.9.3-2.25:OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0:gompi/2016a:FFTW/3.3.4-gompi-2016a:ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0:foss/2016a:bzip2/1.0.6-foss-2016a:zlib/1.2.8-foss-2016a:ncurses/6.0-foss-2016a:libreadline/6.3-foss-2016a:Tcl/8.6.4-foss-2016a:SQLite/3.9.2-foss-2016a:Tk/8.6.4-foss-2016a-no-X11:GMP/6.1.0-foss-2016a:Python/2.7.11-foss-2016a:numpy/1.10.4-foss-2016a-Python-2.7.11:Szip/2.1-foss-2016a:HDF5/1.8.16-foss-2016a:cURL/7.47.0-foss-2016a:netCDF/4.4.0-foss-2016a:netcdf4-python/1.2.6-foss-2016a-Python-2.7.11:mpi4py/2.0.0-foss-2016a-Python-2.7.11:scipy/0.17.0-foss-2016a-Python-2.7.11:libpng/1.6.21-foss-2016a:freetype/2.6.2-foss-2016a:matplotlib/1.5.1-foss-2016a-Python-2.7.11:netCDF-Fortran/4.4.3-foss-2016a:CMake/3.4.3-foss-2016a CONDOR_ROOT=/opt/condor EBROOTGOMPI=/share/apps/software/rhel6/software/gompi/2016a HISTCONTROL=ignoredups EBROOTFOSS=/share/apps/software/rhel6/software/foss/2016a PWD=/home/thl/petsc EBDEVELOPENMPI=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/easybuild/OpenMPI-1.10.2-GCC-4.9.3-2.25-easybuild-devel EBVERSIONTCL=8.6.4 ================================================================================ TEST resetEnvCompilers from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1611) TESTING: resetEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:1611) ================================================================================ TEST checkEnvCompilers from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1641) TESTING: checkEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:1641) ================================================================================ TEST checkMPICompilerOverride from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1576) TESTING: checkMPICompilerOverride from config.setCompilers(config/BuildSystem/config/setCompilers.py:1576) Check if --with-mpi-dir is used along with CC CXX or FC compiler options. This usually prevents mpi compilers from being used - so issue a warning ================================================================================ TEST requireMpiLdPath from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1595) TESTING: requireMpiLdPath from config.setCompilers(config/BuildSystem/config/setCompilers.py:1595) OpenMPI wrappers require LD_LIBRARY_PATH set ================================================================================ TEST checkVendor from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:417) TESTING: checkVendor from config.setCompilers(config/BuildSystem/config/setCompilers.py:417) Determine the compiler vendor Compiler vendor is "" ================================================================================ TEST checkInitialFlags from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:427) TESTING: checkInitialFlags from config.setCompilers(config/BuildSystem/config/setCompilers.py:427) Initialize the compiler and linker flags Pushing language C Initialized CFLAGS to Initialized CFLAGS to Initialized LDFLAGS to Popping language C Pushing language CUDA Initialized CUDAFLAGS to Initialized CUDAFLAGS to Initialized LDFLAGS to Popping language CUDA Pushing language Cxx Initialized CXXFLAGS to Initialized CXX_CXXFLAGS to Initialized LDFLAGS to Popping language Cxx Pushing language FC Initialized FFLAGS to Initialized FFLAGS to Initialized LDFLAGS to Popping language FC Initialized CPPFLAGS to Initialized CUDAPPFLAGS to Initialized CXXCPPFLAGS to Initialized CC_LINKER_FLAGS to [] Initialized CXX_LINKER_FLAGS to [] Initialized FC_LINKER_FLAGS to [] Initialized CUDAC_LINKER_FLAGS to [] Initialized sharedLibraryFlags to [] Initialized dynamicLibraryFlags to [] ================================================================================ TEST checkCCompiler from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:557) TESTING: checkCCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:557) Locate a functional C compiler Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc...found Defined make macro "CC" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv All intermediate test results are stored in /tmp/petsc-n3SpCv/config.setCompilers Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language C ================================================================================ TEST checkCPreprocessor from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:590) TESTING: checkCPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:590) Locate a functional C preprocessor Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc...found Defined make macro "CPP" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E" Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.setCompilers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.setCompilers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.c" 2 # 1 "/usr/include/stdlib.h" 1 3 4 # 25 "/usr/include/stdlib.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 26 "/usr/include/stdlib.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 34 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitflags.h" 1 3 4 # 43 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitstatus.h" 1 3 4 # 65 "/usr/include/bits/waitstatus.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 66 "/usr/include/bits/waitstatus.h" 2 3 4 union wait { int w_status; struct { unsigned int __w_termsig:7; unsigned int __w_coredump:1; unsigned int __w_retcode:8; unsigned int:16; } __wait_terminated; struct { unsigned int __w_stopval:8; unsigned int __w_stopsig:8; unsigned int:16; } __wait_stopped; }; # 44 "/usr/include/stdlib.h" 2 3 4 # 68 "/usr/include/stdlib.h" 3 4 typedef union { union wait *__uptr; int *__iptr; } __WAIT_STATUS __attribute__ ((__transparent_union__)); # 96 "/usr/include/stdlib.h" 3 4 typedef struct { int quot; int rem; } div_t; typedef struct { long int quot; long int rem; } ldiv_t; __extension__ typedef struct { long long int quot; long long int rem; } lldiv_t; # 140 "/usr/include/stdlib.h" 3 4 extern size_t __ctype_get_mb_cur_max (void) __attribute__ ((__nothrow__)) ; extern double atof (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern int atoi (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern long int atol (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int atoll (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern double strtod (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern float strtof (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long double strtold (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long int strtol (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern unsigned long int strtoul (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtouq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoll (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtoull (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 311 "/usr/include/stdlib.h" 3 4 extern char *l64a (long int __n) __attribute__ ((__nothrow__)) ; extern long int a64l (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 220 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 321 "/usr/include/stdlib.h" 2 3 4 extern long int random (void) __attribute__ ((__nothrow__)); extern void srandom (unsigned int __seed) __attribute__ ((__nothrow__)); extern char *initstate (unsigned int __seed, char *__statebuf, size_t __statelen) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *setstate (char *__statebuf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct random_data { int32_t *fptr; int32_t *rptr; int32_t *state; int rand_type; int rand_deg; int rand_sep; int32_t *end_ptr; }; extern int random_r (struct random_data *__restrict __buf, int32_t *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srandom_r (unsigned int __seed, struct random_data *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int initstate_r (unsigned int __seed, char *__restrict __statebuf, size_t __statelen, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern int setstate_r (char *__restrict __statebuf, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int rand (void) __attribute__ ((__nothrow__)); extern void srand (unsigned int __seed) __attribute__ ((__nothrow__)); extern int rand_r (unsigned int *__seed) __attribute__ ((__nothrow__)); extern double drand48 (void) __attribute__ ((__nothrow__)); extern double erand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int lrand48 (void) __attribute__ ((__nothrow__)); extern long int nrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int mrand48 (void) __attribute__ ((__nothrow__)); extern long int jrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void srand48 (long int __seedval) __attribute__ ((__nothrow__)); extern unsigned short int *seed48 (unsigned short int __seed16v[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void lcong48 (unsigned short int __param[7]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct drand48_data { unsigned short int __x[3]; unsigned short int __old_x[3]; unsigned short int __c; unsigned short int __init; unsigned long long int __a; }; extern int drand48_r (struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int erand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int nrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int mrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int jrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srand48_r (long int __seedval, struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int seed48_r (unsigned short int __seed16v[3], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lcong48_r (unsigned short int __param[7], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *malloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *calloc (size_t __nmemb, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *realloc (void *__ptr, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__warn_unused_result__)); extern void free (void *__ptr) __attribute__ ((__nothrow__)); extern void cfree (void *__ptr) __attribute__ ((__nothrow__)); # 1 "/usr/include/alloca.h" 1 3 4 # 25 "/usr/include/alloca.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 26 "/usr/include/alloca.h" 2 3 4 extern void *alloca (size_t __size) __attribute__ ((__nothrow__)); # 498 "/usr/include/stdlib.h" 2 3 4 extern void *valloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int posix_memalign (void **__memptr, size_t __alignment, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern void abort (void) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern int atexit (void (*__func) (void)) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 531 "/usr/include/stdlib.h" 3 4 extern int on_exit (void (*__func) (int __status, void *__arg), void *__arg) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); # 554 "/usr/include/stdlib.h" 3 4 extern void _Exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern char *getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern char *__secure_getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int putenv (char *__string) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int setenv (__const char *__name, __const char *__value, int __replace) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int unsetenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int clearenv (void) __attribute__ ((__nothrow__)); # 606 "/usr/include/stdlib.h" 3 4 extern char *mktemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 620 "/usr/include/stdlib.h" 3 4 extern int mkstemp (char *__template) __attribute__ ((__nonnull__ (1))) ; # 642 "/usr/include/stdlib.h" 3 4 extern int mkstemps (char *__template, int __suffixlen) __attribute__ ((__nonnull__ (1))) ; # 663 "/usr/include/stdlib.h" 3 4 extern char *mkdtemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 712 "/usr/include/stdlib.h" 3 4 extern int system (__const char *__command) ; # 734 "/usr/include/stdlib.h" 3 4 extern char *realpath (__const char *__restrict __name, char *__restrict __resolved) __attribute__ ((__nothrow__)) ; typedef int (*__compar_fn_t) (__const void *, __const void *); # 752 "/usr/include/stdlib.h" 3 4 extern void *bsearch (__const void *__key, __const void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 2, 5))) ; extern void qsort (void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 4))); # 771 "/usr/include/stdlib.h" 3 4 extern int abs (int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern long int labs (long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern long long int llabs (long long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern div_t div (int __numer, int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern ldiv_t ldiv (long int __numer, long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern lldiv_t lldiv (long long int __numer, long long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; # 808 "/usr/include/stdlib.h" 3 4 extern char *ecvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *fcvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *gcvt (double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern char *qecvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qfcvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qgcvt (long double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern int ecvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int fcvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qecvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qfcvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int mblen (__const char *__s, size_t __n) __attribute__ ((__nothrow__)) ; extern int mbtowc (wchar_t *__restrict __pwc, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)) ; extern int wctomb (char *__s, wchar_t __wchar) __attribute__ ((__nothrow__)) ; extern size_t mbstowcs (wchar_t *__restrict __pwcs, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)); extern size_t wcstombs (char *__restrict __s, __const wchar_t *__restrict __pwcs, size_t __n) __attribute__ ((__nothrow__)); extern int rpmatch (__const char *__response) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 896 "/usr/include/stdlib.h" 3 4 extern int getsubopt (char **__restrict __optionp, char *__const *__restrict __tokens, char **__restrict __valuep) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2, 3))) ; # 948 "/usr/include/stdlib.h" 3 4 extern int getloadavg (double __loadavg[], int __nelem) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 964 "/usr/include/stdlib.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Popping language C ================================================================================ TEST checkCUDACompiler from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:631) TESTING: checkCUDACompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:631) Locate a functional CUDA compiler ================================================================================ TEST checkCUDAPreprocessor from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:671) TESTING: checkCUDAPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:671) Locate a functional CUDA preprocessor ================================================================================ TEST checkCxxCompiler from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:783) TESTING: checkCxxCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:783) Locate a functional Cxx compiler Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx...found Defined make macro "CXX" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx" Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language Cxx ================================================================================ TEST checkCxxPreprocessor from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:821) TESTING: checkCxxPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:821) Locate a functional Cxx preprocessor Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx...found Defined make macro "CXXCPP" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -E" Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -E -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc stdout: # 1 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.cc" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.cc" # 1 "/tmp/petsc-n3SpCv/config.setCompilers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.cc" 2 # 1 "/tmp/petsc-n3SpCv/config.setCompilers/conffix.h" 1 extern "C" { } # 3 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.cc" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 1 3 # 39 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 3 # 40 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 3 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/c++config.h" 1 3 # 186 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/c++config.h" 3 namespace std { typedef long unsigned int size_t; typedef long int ptrdiff_t; } # 430 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/c++config.h" 3 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/os_defines.h" 1 3 # 39 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/os_defines.h" 3 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 40 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/os_defines.h" 2 3 # 431 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/c++config.h" 2 3 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/cpu_defines.h" 1 3 # 434 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/x86_64-unknown-linux-gnu/bits/c++config.h" 2 3 # 42 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 2 3 # 72 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 3 # 1 "/usr/include/stdlib.h" 1 3 4 # 33 "/usr/include/stdlib.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 34 "/usr/include/stdlib.h" 2 3 4 extern "C" { # 1 "/usr/include/bits/waitflags.h" 1 3 4 # 43 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitstatus.h" 1 3 4 # 65 "/usr/include/bits/waitstatus.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 66 "/usr/include/bits/waitstatus.h" 2 3 4 union wait { int w_status; struct { unsigned int __w_termsig:7; unsigned int __w_coredump:1; unsigned int __w_retcode:8; unsigned int:16; } __wait_terminated; struct { unsigned int __w_stopval:8; unsigned int __w_stopsig:8; unsigned int:16; } __wait_stopped; }; # 44 "/usr/include/stdlib.h" 2 3 4 # 96 "/usr/include/stdlib.h" 3 4 typedef struct { int quot; int rem; } div_t; typedef struct { long int quot; long int rem; } ldiv_t; __extension__ typedef struct { long long int quot; long long int rem; } lldiv_t; # 140 "/usr/include/stdlib.h" 3 4 extern size_t __ctype_get_mb_cur_max (void) throw () ; extern double atof (__const char *__nptr) throw () __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern int atoi (__const char *__nptr) throw () __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern long int atol (__const char *__nptr) throw () __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int atoll (__const char *__nptr) throw () __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern double strtod (__const char *__restrict __nptr, char **__restrict __endptr) throw () __attribute__ ((__nonnull__ (1))) ; extern float strtof (__const char *__restrict __nptr, char **__restrict __endptr) throw () __attribute__ ((__nonnull__ (1))) ; extern long double strtold (__const char *__restrict __nptr, char **__restrict __endptr) throw () __attribute__ ((__nonnull__ (1))) ; extern long int strtol (__const char *__restrict __nptr, char **__restrict __endptr, int __base) throw () __attribute__ ((__nonnull__ (1))) ; extern unsigned long int strtoul (__const char *__restrict __nptr, char **__restrict __endptr, int __base) throw () __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) throw () __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtouq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) throw () __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoll (__const char *__restrict __nptr, char **__restrict __endptr, int __base) throw () __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtoull (__const char *__restrict __nptr, char **__restrict __endptr, int __base) throw () __attribute__ ((__nonnull__ (1))) ; # 236 "/usr/include/stdlib.h" 3 4 # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 237 "/usr/include/stdlib.h" 2 3 4 extern long int strtol_l (__const char *__restrict __nptr, char **__restrict __endptr, int __base, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 4))) ; extern unsigned long int strtoul_l (__const char *__restrict __nptr, char **__restrict __endptr, int __base, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 4))) ; __extension__ extern long long int strtoll_l (__const char *__restrict __nptr, char **__restrict __endptr, int __base, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 4))) ; __extension__ extern unsigned long long int strtoull_l (__const char *__restrict __nptr, char **__restrict __endptr, int __base, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 4))) ; extern double strtod_l (__const char *__restrict __nptr, char **__restrict __endptr, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 3))) ; extern float strtof_l (__const char *__restrict __nptr, char **__restrict __endptr, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 3))) ; extern long double strtold_l (__const char *__restrict __nptr, char **__restrict __endptr, __locale_t __loc) throw () __attribute__ ((__nonnull__ (1, 3))) ; # 311 "/usr/include/stdlib.h" 3 4 extern char *l64a (long int __n) throw () ; extern long int a64l (__const char *__s) throw () __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 extern "C" { # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; typedef __ino64_t ino64_t; typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; typedef __off64_t off64_t; typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 typedef __useconds_t useconds_t; typedef __suseconds_t suseconds_t; # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 220 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 # 55 "/usr/include/sys/select.h" 3 4 typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 extern "C" { # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); } # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) throw (); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) throw (); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) throw (); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 263 "/usr/include/sys/types.h" 3 4 typedef __blkcnt64_t blkcnt64_t; typedef __fsblkcnt64_t fsblkcnt64_t; typedef __fsfilcnt64_t fsfilcnt64_t; # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 } # 321 "/usr/include/stdlib.h" 2 3 4 extern long int random (void) throw (); extern void srandom (unsigned int __seed) throw (); extern char *initstate (unsigned int __seed, char *__statebuf, size_t __statelen) throw () __attribute__ ((__nonnull__ (2))); extern char *setstate (char *__statebuf) throw () __attribute__ ((__nonnull__ (1))); struct random_data { int32_t *fptr; int32_t *rptr; int32_t *state; int rand_type; int rand_deg; int rand_sep; int32_t *end_ptr; }; extern int random_r (struct random_data *__restrict __buf, int32_t *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int srandom_r (unsigned int __seed, struct random_data *__buf) throw () __attribute__ ((__nonnull__ (2))); extern int initstate_r (unsigned int __seed, char *__restrict __statebuf, size_t __statelen, struct random_data *__restrict __buf) throw () __attribute__ ((__nonnull__ (2, 4))); extern int setstate_r (char *__restrict __statebuf, struct random_data *__restrict __buf) throw () __attribute__ ((__nonnull__ (1, 2))); extern int rand (void) throw (); extern void srand (unsigned int __seed) throw (); extern int rand_r (unsigned int *__seed) throw (); extern double drand48 (void) throw (); extern double erand48 (unsigned short int __xsubi[3]) throw () __attribute__ ((__nonnull__ (1))); extern long int lrand48 (void) throw (); extern long int nrand48 (unsigned short int __xsubi[3]) throw () __attribute__ ((__nonnull__ (1))); extern long int mrand48 (void) throw (); extern long int jrand48 (unsigned short int __xsubi[3]) throw () __attribute__ ((__nonnull__ (1))); extern void srand48 (long int __seedval) throw (); extern unsigned short int *seed48 (unsigned short int __seed16v[3]) throw () __attribute__ ((__nonnull__ (1))); extern void lcong48 (unsigned short int __param[7]) throw () __attribute__ ((__nonnull__ (1))); struct drand48_data { unsigned short int __x[3]; unsigned short int __old_x[3]; unsigned short int __c; unsigned short int __init; unsigned long long int __a; }; extern int drand48_r (struct drand48_data *__restrict __buffer, double *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int erand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, double *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int lrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int nrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int mrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int jrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) throw () __attribute__ ((__nonnull__ (1, 2))); extern int srand48_r (long int __seedval, struct drand48_data *__buffer) throw () __attribute__ ((__nonnull__ (2))); extern int seed48_r (unsigned short int __seed16v[3], struct drand48_data *__buffer) throw () __attribute__ ((__nonnull__ (1, 2))); extern int lcong48_r (unsigned short int __param[7], struct drand48_data *__buffer) throw () __attribute__ ((__nonnull__ (1, 2))); extern void *malloc (size_t __size) throw () __attribute__ ((__malloc__)) ; extern void *calloc (size_t __nmemb, size_t __size) throw () __attribute__ ((__malloc__)) ; extern void *realloc (void *__ptr, size_t __size) throw () __attribute__ ((__warn_unused_result__)); extern void free (void *__ptr) throw (); extern void cfree (void *__ptr) throw (); # 1 "/usr/include/alloca.h" 1 3 4 # 25 "/usr/include/alloca.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 26 "/usr/include/alloca.h" 2 3 4 extern "C" { extern void *alloca (size_t __size) throw (); } # 498 "/usr/include/stdlib.h" 2 3 4 extern void *valloc (size_t __size) throw () __attribute__ ((__malloc__)) ; extern int posix_memalign (void **__memptr, size_t __alignment, size_t __size) throw () __attribute__ ((__nonnull__ (1))) ; extern void abort (void) throw () __attribute__ ((__noreturn__)); extern int atexit (void (*__func) (void)) throw () __attribute__ ((__nonnull__ (1))); extern "C++" int at_quick_exit (void (*__func) (void)) throw () __asm ("at_quick_exit") __attribute__ ((__nonnull__ (1))); extern int on_exit (void (*__func) (int __status, void *__arg), void *__arg) throw () __attribute__ ((__nonnull__ (1))); extern void exit (int __status) throw () __attribute__ ((__noreturn__)); extern void quick_exit (int __status) throw () __attribute__ ((__noreturn__)); extern void _Exit (int __status) throw () __attribute__ ((__noreturn__)); extern char *getenv (__const char *__name) throw () __attribute__ ((__nonnull__ (1))) ; extern char *__secure_getenv (__const char *__name) throw () __attribute__ ((__nonnull__ (1))) ; extern int putenv (char *__string) throw () __attribute__ ((__nonnull__ (1))); extern int setenv (__const char *__name, __const char *__value, int __replace) throw () __attribute__ ((__nonnull__ (2))); extern int unsetenv (__const char *__name) throw () __attribute__ ((__nonnull__ (1))); extern int clearenv (void) throw (); # 606 "/usr/include/stdlib.h" 3 4 extern char *mktemp (char *__template) throw () __attribute__ ((__nonnull__ (1))) ; # 620 "/usr/include/stdlib.h" 3 4 extern int mkstemp (char *__template) __attribute__ ((__nonnull__ (1))) ; # 630 "/usr/include/stdlib.h" 3 4 extern int mkstemp64 (char *__template) __attribute__ ((__nonnull__ (1))) ; # 642 "/usr/include/stdlib.h" 3 4 extern int mkstemps (char *__template, int __suffixlen) __attribute__ ((__nonnull__ (1))) ; # 652 "/usr/include/stdlib.h" 3 4 extern int mkstemps64 (char *__template, int __suffixlen) __attribute__ ((__nonnull__ (1))) ; # 663 "/usr/include/stdlib.h" 3 4 extern char *mkdtemp (char *__template) throw () __attribute__ ((__nonnull__ (1))) ; # 674 "/usr/include/stdlib.h" 3 4 extern int mkostemp (char *__template, int __flags) __attribute__ ((__nonnull__ (1))) ; # 684 "/usr/include/stdlib.h" 3 4 extern int mkostemp64 (char *__template, int __flags) __attribute__ ((__nonnull__ (1))) ; # 694 "/usr/include/stdlib.h" 3 4 extern int mkostemps (char *__template, int __suffixlen, int __flags) __attribute__ ((__nonnull__ (1))) ; # 706 "/usr/include/stdlib.h" 3 4 extern int mkostemps64 (char *__template, int __suffixlen, int __flags) __attribute__ ((__nonnull__ (1))) ; extern int system (__const char *__command) ; extern char *canonicalize_file_name (__const char *__name) throw () __attribute__ ((__nonnull__ (1))) ; # 734 "/usr/include/stdlib.h" 3 4 extern char *realpath (__const char *__restrict __name, char *__restrict __resolved) throw () ; typedef int (*__compar_fn_t) (__const void *, __const void *); typedef __compar_fn_t comparison_fn_t; typedef int (*__compar_d_fn_t) (__const void *, __const void *, void *); extern void *bsearch (__const void *__key, __const void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 2, 5))) ; extern void qsort (void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 4))); extern void qsort_r (void *__base, size_t __nmemb, size_t __size, __compar_d_fn_t __compar, void *__arg) __attribute__ ((__nonnull__ (1, 4))); extern int abs (int __x) throw () __attribute__ ((__const__)) ; extern long int labs (long int __x) throw () __attribute__ ((__const__)) ; __extension__ extern long long int llabs (long long int __x) throw () __attribute__ ((__const__)) ; extern div_t div (int __numer, int __denom) throw () __attribute__ ((__const__)) ; extern ldiv_t ldiv (long int __numer, long int __denom) throw () __attribute__ ((__const__)) ; __extension__ extern lldiv_t lldiv (long long int __numer, long long int __denom) throw () __attribute__ ((__const__)) ; # 808 "/usr/include/stdlib.h" 3 4 extern char *ecvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) throw () __attribute__ ((__nonnull__ (3, 4))) ; extern char *fcvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) throw () __attribute__ ((__nonnull__ (3, 4))) ; extern char *gcvt (double __value, int __ndigit, char *__buf) throw () __attribute__ ((__nonnull__ (3))) ; extern char *qecvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) throw () __attribute__ ((__nonnull__ (3, 4))) ; extern char *qfcvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) throw () __attribute__ ((__nonnull__ (3, 4))) ; extern char *qgcvt (long double __value, int __ndigit, char *__buf) throw () __attribute__ ((__nonnull__ (3))) ; extern int ecvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) throw () __attribute__ ((__nonnull__ (3, 4, 5))); extern int fcvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) throw () __attribute__ ((__nonnull__ (3, 4, 5))); extern int qecvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) throw () __attribute__ ((__nonnull__ (3, 4, 5))); extern int qfcvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) throw () __attribute__ ((__nonnull__ (3, 4, 5))); extern int mblen (__const char *__s, size_t __n) throw () ; extern int mbtowc (wchar_t *__restrict __pwc, __const char *__restrict __s, size_t __n) throw () ; extern int wctomb (char *__s, wchar_t __wchar) throw () ; extern size_t mbstowcs (wchar_t *__restrict __pwcs, __const char *__restrict __s, size_t __n) throw (); extern size_t wcstombs (char *__restrict __s, __const wchar_t *__restrict __pwcs, size_t __n) throw (); extern int rpmatch (__const char *__response) throw () __attribute__ ((__nonnull__ (1))) ; # 896 "/usr/include/stdlib.h" 3 4 extern int getsubopt (char **__restrict __optionp, char *__const *__restrict __tokens, char **__restrict __valuep) throw () __attribute__ ((__nonnull__ (1, 2, 3))) ; extern void setkey (__const char *__key) throw () __attribute__ ((__nonnull__ (1))); extern int posix_openpt (int __oflag) ; extern int grantpt (int __fd) throw (); extern int unlockpt (int __fd) throw (); extern char *ptsname (int __fd) throw () ; extern int ptsname_r (int __fd, char *__buf, size_t __buflen) throw () __attribute__ ((__nonnull__ (2))); extern int getpt (void); extern int getloadavg (double __loadavg[], int __nelem) throw () __attribute__ ((__nonnull__ (1))); # 964 "/usr/include/stdlib.h" 3 4 } # 73 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 2 3 # 114 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 3 namespace std __attribute__ ((__visibility__ ("default"))) { using ::div_t; using ::ldiv_t; using ::abort; using ::abs; using ::atexit; using ::atof; using ::atoi; using ::atol; using ::bsearch; using ::calloc; using ::div; using ::exit; using ::free; using ::getenv; using ::labs; using ::ldiv; using ::malloc; using ::mblen; using ::mbstowcs; using ::mbtowc; using ::qsort; using ::rand; using ::realloc; using ::srand; using ::strtod; using ::strtol; using ::strtoul; using ::system; using ::wcstombs; using ::wctomb; inline long abs(long __i) { return __builtin_labs(__i); } inline ldiv_t div(long __i, long __j) { return ldiv(__i, __j); } inline long long abs(long long __x) { return __builtin_llabs (__x); } inline __int128 abs(__int128 __x) { return __x >= 0 ? __x : -__x; } } # 196 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 3 namespace __gnu_cxx __attribute__ ((__visibility__ ("default"))) { using ::lldiv_t; using ::_Exit; using ::llabs; inline lldiv_t div(long long __n, long long __d) { lldiv_t __q; __q.quot = __n / __d; __q.rem = __n % __d; return __q; } using ::lldiv; # 228 "/share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/cstdlib" 3 using ::atoll; using ::strtoll; using ::strtoull; using ::strtof; using ::strtold; } namespace std { using ::__gnu_cxx::lldiv_t; using ::__gnu_cxx::_Exit; using ::__gnu_cxx::llabs; using ::__gnu_cxx::div; using ::__gnu_cxx::lldiv; using ::__gnu_cxx::atoll; using ::__gnu_cxx::strtof; using ::__gnu_cxx::strtoll; using ::__gnu_cxx::strtoull; using ::__gnu_cxx::strtold; } # 3 "/tmp/petsc-n3SpCv/config.setCompilers/conftest.cc" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Popping language Cxx ================================================================================ TEST checkFortranCompiler from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:938) TESTING: checkFortranCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:938) Locate a functional Fortran compiler Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90...found Defined make macro "FC" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90" Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language FC ================================================================================ TEST checkFortranComments from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:959) TESTING: checkFortranComments from config.setCompilers(config/BuildSystem/config/setCompilers.py:959) Make sure fortran comment "!" works Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: ! comment program main end Fortran comments can use ! in column 1 Popping language FC ================================================================================ TEST checkLargeFileIO from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1076) TESTING: checkLargeFileIO from config.setCompilers(config/BuildSystem/config/setCompilers.py:1076) ================================================================================ TEST checkArchiver from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1175) TESTING: checkArchiver from config.setCompilers(config/BuildSystem/config/setCompilers.py:1175) Check that the archiver exists and can make a library usable by the compiler Pushing language C Executing: ar -V stdout: GNU ar (GNU Binutils) 2.25 Copyright (C) 2014 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) any later version. This program has absolutely no warranty. Executing: ar -V stdout: GNU ar (GNU Binutils) 2.25 Copyright (C) 2014 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) any later version. This program has absolutely no warranty. Defined make macro "FAST_AR_FLAGS" to "Scq" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/ar...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/ar...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/ar...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/ar...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/ar...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/ar...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/ar...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/ar...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar...found Defined make macro "AR" to "/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/ranlib...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib...found Defined make macro "RANLIB" to "/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib -c" Executing: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar cr /tmp/petsc-n3SpCv/config.setCompilers/libconf1.a /tmp/petsc-n3SpCv/config.setCompilers/conf1.o Executing: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib -c /tmp/petsc-n3SpCv/config.setCompilers/libconf1.a Possible ERROR while running ranlib: stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib: invalid option -- 'c' Ranlib is not functional with your archiver. Try --with-ranlib=true if ranlib is unnecessary. Executing: ar -V stdout: GNU ar (GNU Binutils) 2.25 Copyright (C) 2014 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) any later version. This program has absolutely no warranty. Executing: ar -V stdout: GNU ar (GNU Binutils) 2.25 Copyright (C) 2014 Free Software Foundation, Inc. This program is free software; you may redistribute it under the terms of the GNU General Public License version 3 or (at your option) any later version. This program has absolutely no warranty. Defined make macro "FAST_AR_FLAGS" to "Scq" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/ar...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/ar...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/ar...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/ar...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/ar...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/ar...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/ar...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/ar...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/ar...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar...found Defined make macro "AR" to "/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/ranlib...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/ranlib...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib...found Defined make macro "RANLIB" to "/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib" Executing: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar cr /tmp/petsc-n3SpCv/config.setCompilers/libconf1.a /tmp/petsc-n3SpCv/config.setCompilers/conf1.o Executing: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib /tmp/petsc-n3SpCv/config.setCompilers/libconf1.a Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern int foo(int); int main() { int b = foo(1); if (b); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -L/tmp/petsc-n3SpCv/config.setCompilers -lconf1 Defined make macro "AR_FLAGS" to "cr" Defined make macro "AR_LIB_SUFFIX" to "a" Popping language C ================================================================================ TEST checkSharedLinker from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1289) TESTING: checkSharedLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1289) Check that the linker can produce shared libraries Executing: uname -s stdout: Linux Checking shared linker /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc using flags ['-shared'] Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc...found Defined make macro "LD_SHARED" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Trying C compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -shared /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Valid C linker flag -shared Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {fprintf(stdout,"hello"); return 0;} Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: /tmp/petsc-n3SpCv/config.setCompilers/conftest.o: requires dynamic R_X86_64_PC32 reloc against 'stdout' which may overflow at runtime; recompile with -fPIC collect2: error: ld returned 1 exit status Rejected C compiler flag because it was not compatible with shared linker /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc using flags ['-shared'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --help stdout: Usage: gcc [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by gcc. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Trying C compiler flag -fPIC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -fPIC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Valid C linker flag -shared Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {fprintf(stdout,"hello"); return 0;} Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(void); int main() { int ret = foo(); if (ret) {} ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -L/tmp/petsc-n3SpCv/config.setCompilers -lconftest Using shared linker /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc with flags ['-shared'] and library extension so Executing: uname -s stdout: Linux ================================================================================ TEST checkPIC from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1035) TESTING: checkPIC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1035) Determine the PIC option for each compiler Pushing language C Trying C compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void foo(void){fprintf(stdout,"hello"); return;} void bar(void){foo();} Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Accepted C compiler flag Popping language C Pushing language Cxx Trying Cxx compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void foo(void){fprintf(stdout,"hello"); return;} void bar(void){foo();} Pushing language C Pushing language C Popping language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: /tmp/petsc-n3SpCv/config.setCompilers/conftest.o: requires dynamic R_X86_64_PC32 reloc against 'stdout' which may overflow at runtime; recompile with -fPIC collect2: error: ld returned 1 exit status Rejected Cxx compiler flag because shared linker cannot handle it Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --help stdout: Usage: g++ [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by g++. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Trying Cxx compiler flag -fPIC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -fPIC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void foo(void){fprintf(stdout,"hello"); return;} void bar(void){foo();} Pushing language C Pushing language C Popping language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Accepted Cxx compiler flag -fPIC Popping language Cxx Pushing language FC Trying FC compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Added FC compiler flag Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: function foo(a) real:: a,x,bar common /xx/ x x=a foo = bar(x) end Pushing language C Pushing language C Popping language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: /tmp/petsc-n3SpCv/config.setCompilers/conftest.o: requires dynamic R_X86_64_PC32 reloc against 'xx_' which may overflow at runtime; recompile with -fPIC collect2: error: ld returned 1 exit status Rejected FC compiler flag because shared linker cannot handle it Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --help stdout: Usage: gfortran [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by gfortran. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Trying FC compiler flag -fPIC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Added FC compiler flag -fPIC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: function foo(a) real:: a,x,bar common /xx/ x x=a foo = bar(x) end Pushing language C Pushing language C Popping language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Accepted FC compiler flag -fPIC Popping language FC ================================================================================ TEST checkSharedLinkerPaths from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1384) TESTING: checkSharedLinkerPaths from config.setCompilers(config/BuildSystem/config/setCompilers.py:1384) Determine the shared linker path options - IRIX: -rpath - Linux, OSF: -Wl,-rpath, - Solaris: -R - FreeBSD: -Wl,-R, Pushing language C Executing: uname -s stdout: Linux Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -V Trying C linker flag -Wl,-rpath, Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -Wl,-rpath,/global/home/thl/petsc -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Valid C linker flag -Wl,-rpath,/global/home/thl/petsc Popping language C Pushing language Cxx Executing: uname -s stdout: Linux Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -V Trying Cxx linker flag -Wl,-rpath, Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -Wl,-rpath,/global/home/thl/petsc /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Valid Cxx linker flag -Wl,-rpath,/global/home/thl/petsc Popping language Cxx Pushing language FC Executing: uname -s stdout: Linux Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -V Trying FC linker flag -Wl,-rpath, Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -Wl,-rpath,/global/home/thl/petsc -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Valid FC linker flag -Wl,-rpath,/global/home/thl/petsc Popping language FC ================================================================================ TEST checkLibC from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1419) TESTING: checkLibC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1419) Test whether we need to explicitly include libc in shared linking - Mac OSX requires an explicit reference to libc for shared linking Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {void *chunk = malloc(31); free(chunk); return 0;} Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o Shared linking does not require an explicit libc reference ================================================================================ TEST checkDynamicLinker from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1468) TESTING: checkDynamicLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1468) Check that the linker can dynamicaly load shared libraries Checking for header: dlfcn.h All intermediate test results are stored in /tmp/petsc-n3SpCv/config.headers Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/dlfcn.h" 1 3 4 # 23 "/usr/include/dlfcn.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/dlfcn.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 26 "/usr/include/dlfcn.h" 2 3 4 # 1 "/usr/include/bits/dlfcn.h" 1 3 4 # 29 "/usr/include/dlfcn.h" 2 3 4 # 53 "/usr/include/dlfcn.h" 3 4 extern void *dlopen (__const char *__file, int __mode) __attribute__ ((__nothrow__)); extern int dlclose (void *__handle) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void *dlsym (void *__restrict __handle, __const char *__restrict __name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 83 "/usr/include/dlfcn.h" 3 4 extern char *dlerror (void) __attribute__ ((__nothrow__)); # 189 "/usr/include/dlfcn.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_DLFCN_H" to "1" Checking for functions [dlopen dlsym dlclose] in library ['dl'] [] Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv/config.libraries Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dlopen(); static void _check_dlopen() { dlopen(); } char dlsym(); static void _check_dlsym() { dlsym(); } char dlclose(); static void _check_dlclose() { dlclose(); } int main() { _check_dlopen(); _check_dlsym(); _check_dlclose();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC /tmp/petsc-n3SpCv/config.libraries/conftest.o -ldl Defined "HAVE_LIBDL" to "1" Popping language C Adding ['dl'] to LIBS Executing: uname -s stdout: Linux Checking dynamic linker /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc using flags ['-shared'] Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc...found Defined make macro "DYNAMICLINKER" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -ldl Valid C linker flag -shared Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {printf("test");return 0;} Pushing language C Popping language C Pushing language CUDA Popping language CUDA Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:11:3: warning: incompatible implicit declaration of built-in function ‘printf’ printf("Could not load symbol\n"); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:15:3: warning: incompatible implicit declaration of built-in function ‘printf’ printf("Invalid return from foo()\n"); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:19:3: warning: incompatible implicit declaration of built-in function ‘printf’ printf("Could not close library\n"); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { void *handle = dlopen("/tmp/petsc-n3SpCv/config.setCompilers/libconftest.so", 0); int (*foo)(void) = (int (*)(void)) dlsym(handle, "foo"); if (!foo) { printf("Could not load symbol\n"); return -1; } if ((*foo)()) { printf("Invalid return from foo()\n"); return -1; } if (dlclose(handle)) { printf("Could not close library\n"); return -1; } ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -ldl Using dynamic linker /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc with flags ['-shared'] and library extension so ================================================================================ TEST output from config.setCompilers(/global/home/thl/petsc/config/BuildSystem/config/setCompilers.py:1520) TESTING: output from config.setCompilers(config/BuildSystem/config/setCompilers.py:1520) Output module data as defines and substitutions Substituting "CC" with "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Substituting "CFLAGS" with " -fPIC " Defined make macro "CC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "CPP" with "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E" Substituting "CPPFLAGS" with "" Substituting "CXX" with "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx" Substituting "CXX_CXXFLAGS" with " -fPIC" Substituting "CXXFLAGS" with "" Substituting "CXX_LINKER_SLFLAG" with "-Wl,-rpath," Substituting "CXXCPP" with "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -E" Substituting "CXXCPPFLAGS" with "" Substituting "FC" with "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90" Substituting "FFLAGS" with " -fPIC" Defined make macro "FC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "LDFLAGS" with "" Substituting "LIBS" with "-ldl " Substituting "SHARED_LIBRARY_FLAG" with "-shared" ================================================================================ TEST checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(/global/home/thl/petsc/config/PETSc/options/sharedLibraries.py:37) TESTING: checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:37) ================================================================================ TEST configureSharedLibraries from PETSc.options.sharedLibraries(/global/home/thl/petsc/config/PETSc/options/sharedLibraries.py:53) TESTING: configureSharedLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:53) Checks whether shared libraries should be used, for which you must - Specify --with-shared-libraries - Have found a working shared linker Defines PETSC_USE_SHARED_LIBRARIES if they are used Defined make rule "shared_arch" with dependencies "shared_linux" and code [] Defined make macro "SONAME_FUNCTION" to "$(1).so.$(2)" Defined make macro "SL_LINKER_FUNCTION" to "-shared -Wl,-soname,$(call SONAME_FUNCTION,$(notdir $(1)),$(2))" Defined make macro "BUILDSHAREDLIB" to "yes" Defined "HAVE_SHARED_LIBRARIES" to "1" Defined "USE_SHARED_LIBRARIES" to "1" ================================================================================ TEST configureDynamicLibraries from PETSc.options.sharedLibraries(/global/home/thl/petsc/config/PETSc/options/sharedLibraries.py:99) TESTING: configureDynamicLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:99) Checks whether dynamic loading is available (with dlfcn.h and libdl) Defined "HAVE_DYNAMIC_LIBRARIES" to "1" ================================================================================ TEST configureSerializedFunctions from PETSc.options.sharedLibraries(/global/home/thl/petsc/config/PETSc/options/sharedLibraries.py:105) TESTING: configureSerializedFunctions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:105) Defines PETSC_SERIALIZE_FUNCTIONS if they are used Requires shared libraries ================================================================================ TEST configureIndexSize from PETSc.options.indexTypes(/global/home/thl/petsc/config/PETSc/options/indexTypes.py:31) TESTING: configureIndexSize from PETSc.options.indexTypes(config/PETSc/options/indexTypes.py:31) Defined make macro "PETSC_INDEX_SIZE" to "32" ================================================================================ TEST configureCompilerFlags from config.compilerFlags(/global/home/thl/petsc/config/BuildSystem/config/compilerFlags.py:72) TESTING: configureCompilerFlags from config.compilerFlags(config/BuildSystem/config/compilerFlags.py:72) Get the default compiler flags Defined make macro "MPICC_SHOW" to "gcc -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi" Trying C compiler flag -Wall Trying C compiler flag -Wwrite-strings Trying C compiler flag -Wno-strict-aliasing Trying C compiler flag -Wno-unknown-pragmas Trying C compiler flag -fstack-protector Trying C compiler flag -mfp16-format=ieee Rejected C compiler flag -mfp16-format=ieee Trying C compiler flag -fvisibility=hidden Trying C compiler flag -O3 Defined make macro "MPICXX_SHOW" to "g++ -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_cxx -lmpi" Trying Cxx compiler flag -Wall Trying Cxx compiler flag -Wwrite-strings Trying Cxx compiler flag -Wno-strict-aliasing Trying Cxx compiler flag -Wno-unknown-pragmas Trying Cxx compiler flag -fstack-protector Trying Cxx compiler flag -fvisibility=hidden Defined make macro "MPICXX_SHOW" to "g++ -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_cxx -lmpi" Trying Cxx compiler flag -g Trying Cxx compiler flag -O Defined make macro "MPIFC_SHOW" to "gfortran -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi" Trying FC compiler flag -Wall Trying FC compiler flag -ffree-line-length-0 Trying FC compiler flag -Wno-unused-dummy-argument Trying FC compiler flag -O3 Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wall Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wwrite-strings Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wno-strict-aliasing Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wno-unknown-pragmas Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -fstack-protector Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -mfp16-format=ieee /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Possible ERROR while running compiler: exit code 256 stderr: gcc: error: unrecognized command line option ‘-mfp16-format=ieee’ Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -mfp16-format=ieee due to nonzero status from link Rejecting compiler flag -mfp16-format=ieee due to gcc: error: unrecognized command line option ‘-mfp16-format=ieee’ PETSc Error: No output file produced Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -fvisibility=hidden Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -O3 Popping language C Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wall Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wwrite-strings Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wno-strict-aliasing Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wno-unknown-pragmas Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -fstack-protector Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -fvisibility=hidden Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -g Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -O Popping language Cxx Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Added FC compiler flag -Wall Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Added FC compiler flag -ffree-line-length-0 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Added FC compiler flag -Wno-unused-dummy-argument Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Added FC compiler flag -O3 Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --version stdout: gcc (GCC) 4.9.3 Copyright (C) 2015 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. getCompilerVersion: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc gcc (GCC) 4.9.3 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -show stdout: gcc -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --help stdout: Usage: gcc [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by gcc. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --help stdout: Usage: gcc [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by gcc. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --version stdout: g++ (GCC) 4.9.3 Copyright (C) 2015 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. getCompilerVersion: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx g++ (GCC) 4.9.3 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -show stdout: g++ -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_cxx -lmpi Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --help stdout: Usage: g++ [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by g++. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -show stdout: g++ -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_cxx -lmpi Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --help stdout: Usage: g++ [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by g++. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . =============================================================================== ***** WARNING: Using default C++ optimization flags -g -O You might consider manually setting optimal optimization flags for your system with CXXOPTFLAGS="optimization flags" see config/examples/arch-*-opt.py for examples =============================================================================== Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --version stdout: GNU Fortran (GCC) 4.9.3 Copyright (C) 2015 Free Software Foundation, Inc. GNU Fortran comes with NO WARRANTY, to the extent permitted by law. You may redistribute copies of GNU Fortran under the terms of the GNU General Public License. For more information about these matters, see the file named COPYING getCompilerVersion: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 GNU Fortran (GCC) 4.9.3 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -show stdout: gfortran -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --help stdout: Usage: gfortran [options] file... Options: -pass-exit-codes Exit with highest error code from a phase --help Display this information --target-help Display target specific command line options --help={common|optimizers|params|target|warnings|[^]{joined|separate|undocumented}}[,...] Display specific types of command line options (Use '-v --help' to display command line options of sub-processes) --version Display compiler version information -dumpspecs Display all of the built in spec strings -dumpversion Display the version of the compiler -dumpmachine Display the compiler's target processor -print-search-dirs Display the directories in the compiler's search path -print-libgcc-file-name Display the name of the compiler's companion library -print-file-name= Display the full path to library -print-prog-name= Display the full path to compiler component -print-multiarch Display the target's normalized GNU triplet, used as a component in the library path -print-multi-directory Display the root directory for versions of libgcc -print-multi-lib Display the mapping between command line options and multiple library search directories -print-multi-os-directory Display the relative path to OS libraries -print-sysroot Display the target libraries directory -print-sysroot-headers-suffix Display the sysroot suffix used to find headers -Wa, Pass comma-separated on to the assembler -Wp, Pass comma-separated on to the preprocessor -Wl, Pass comma-separated on to the linker -Xassembler Pass on to the assembler -Xpreprocessor Pass on to the preprocessor -Xlinker Pass on to the linker -save-temps Do not delete intermediate files -save-temps= Do not delete intermediate files -no-canonical-prefixes Do not canonicalize paths when building relative prefixes to other gcc components -pipe Use pipes rather than intermediate files -time Time the execution of each subprocess -specs= Override built-in specs with the contents of -std= Assume that the input sources are for --sysroot= Use as the root directory for headers and libraries -B Add to the compiler's search paths -v Display the programs invoked by the compiler -### Like -v but options quoted and commands not executed -E Preprocess only; do not compile, assemble or link -S Compile only; do not assemble or link -c Compile and assemble, but do not link -o Place the output into -pie Create a position independent executable -shared Create a shared library -x Specify the language of the following input files Permissible languages include: c c++ assembler none 'none' means revert to the default behavior of guessing the language based on the file's extension Options starting with -g, -f, -m, -O, -W, or --param are automatically passed on to the various sub-processes invoked by gfortran. In order to pass other options on to these processes the -W options must be used. For bug reporting instructions, please see: . Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --version stdout: GNU Fortran (GCC) 4.9.3 Copyright (C) 2015 Free Software Foundation, Inc. GNU Fortran comes with NO WARRANTY, to the extent permitted by law. You may redistribute copies of GNU Fortran under the terms of the GNU General Public License. For more information about these matters, see the file named COPYING Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --version stdout: GNU Fortran (GCC) 4.9.3 Copyright (C) 2015 Free Software Foundation, Inc. GNU Fortran comes with NO WARRANTY, to the extent permitted by law. You may redistribute copies of GNU Fortran under the terms of the GNU General Public License. For more information about these matters, see the file named COPYING Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --version stdout: GNU Fortran (GCC) 4.9.3 Copyright (C) 2015 Free Software Foundation, Inc. GNU Fortran comes with NO WARRANTY, to the extent permitted by law. You may redistribute copies of GNU Fortran under the terms of the GNU General Public License. For more information about these matters, see the file named COPYING ================================================================================ TEST configureDebugging from PETSc.options.debugging(/global/home/thl/petsc/config/PETSc/options/debugging.py:25) TESTING: configureDebugging from PETSc.options.debugging(config/PETSc/options/debugging.py:25) Defined "USE_ERRORCHECKING" to "1" =============================================================================== WARNING! Compiling PETSc with no debugging, this should only be done for timing and production runs. All development should be done when configured using --with-debugging=1 =============================================================================== ================================================================================ TEST checkRestrict from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:137) TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:137) Check for the C/CXX restrict keyword Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -V Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv/config.compilers Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.compilers/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.compilers/conftest.c:5:20: warning: unused variable ‘x’ [-Wunused-variable] float * __restrict x;; ^ Source: #include "confdefs.h" #include "conffix.h" int main() { float * __restrict x;; return 0; } compilers: Set C restrict keyword to __restrict Defined "C_RESTRICT" to "__restrict" Popping language C ================================================================================ TEST checkCFormatting from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:322) TESTING: checkCFormatting from config.compilers(config/BuildSystem/config/compilers.py:322) Activate format string checking if using the GNU compilers ================================================================================ TEST checkCStaticInline from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:108) TESTING: checkCStaticInline from config.compilers(config/BuildSystem/config/compilers.py:108) Check for C keyword: static inline Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" static inline int foo(int a) {return a;} int main() { foo(1);; return 0; } compilers: Set C StaticInline keyword to static inline Popping language C Defined "C_STATIC_INLINE" to "static inline" ================================================================================ TEST checkDynamicLoadFlag from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:333) TESTING: checkDynamicLoadFlag from config.compilers(config/BuildSystem/config/compilers.py:333) Checks that dlopen() takes RTLD_XXX, and defines PETSC_HAVE_RTLD_XXX if it does Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_LAZY); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_LAZY" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_NOW); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_NOW" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_LOCAL); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_LOCAL" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_GLOBAL); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_GLOBAL" to "1" ================================================================================ TEST checkCLibraries from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:171) TESTING: checkCLibraries from config.compilers(config/BuildSystem/config/compilers.py:171) Determines the libraries needed to link with C Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.compilers/conftest -v -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -ldl Possible ERROR while running linker: stderr: Using built-in specs. COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gcc COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper Target: x86_64-unknown-linux-gnu Configured with: ../configure --enable-languages=c,c++,fortran --enable-lto --enable-checking=release --disable-multilib --enable-shared=yes --enable-static=yes --enable-threads=posix --enable-gold=default --enable-plugins --enable-ld --with-plugin-ld=ld.gold --enable-bootstrap --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 Thread model: posix gcc version 4.9.3 (GCC) COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-n3SpCv/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-Wwrite-strings' '-Wno-strict-aliasing' '-Wno-unknown-pragmas' '-fstack-protector' '-fvisibility=hidden' '-O3' '-I' '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include' '-L/opt/torque/lib' '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib' '-mtune=generic' '-march=x86-64' /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 -plugin /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper -plugin-opt=-fresolution=/tmp/ccmd3WEG.res -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lgcc_s --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o /tmp/petsc-n3SpCv/config.compilers/conftest /usr/lib/../lib64/crt1.o /usr/lib/../lib64/crti.o /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o -L/opt/torque/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../.. /tmp/petsc-n3SpCv/config.compilers/conftest.o -ldl -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib --enable-new-dtags -lmpi -lgcc --as-needed -lgcc_s --no-as-needed -lc -lgcc --as-needed -lgcc_s --no-as-needed /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o /usr/lib/../lib64/crtn.o Popping language C compilers: Checking arg Using compilers: Unknown arg Using compilers: Checking arg built-in compilers: Unknown arg built-in compilers: Checking arg specs. compilers: Unknown arg specs. compilers: Checking arg COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gcc compilers: Unknown arg COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gcc compilers: Checking arg COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Unknown arg COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Checking arg Target: compilers: Unknown arg Target: compilers: Checking arg x86_64-unknown-linux-gnu compilers: Unknown arg x86_64-unknown-linux-gnu compilers: Checking arg Configured compilers: Unknown arg Configured compilers: Checking arg with: compilers: Unknown arg with: compilers: Checking arg ../configure compilers: Unknown arg ../configure compilers: Checking arg --enable-languages=c,c++,fortran compilers: Unknown arg --enable-languages=c,c++,fortran compilers: Checking arg --enable-lto compilers: Unknown arg --enable-lto compilers: Checking arg --enable-checking=release compilers: Unknown arg --enable-checking=release compilers: Checking arg --disable-multilib compilers: Unknown arg --disable-multilib compilers: Checking arg --enable-shared=yes compilers: Unknown arg --enable-shared=yes compilers: Checking arg --enable-static=yes compilers: Unknown arg --enable-static=yes compilers: Checking arg --enable-threads=posix compilers: Unknown arg --enable-threads=posix compilers: Checking arg --enable-gold=default compilers: Unknown arg --enable-gold=default compilers: Checking arg --enable-plugins compilers: Unknown arg --enable-plugins compilers: Checking arg --enable-ld compilers: Unknown arg --enable-ld compilers: Checking arg --with-plugin-ld=ld.gold compilers: Unknown arg --with-plugin-ld=ld.gold compilers: Checking arg --enable-bootstrap compilers: Unknown arg --enable-bootstrap compilers: Checking arg --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Unknown arg --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Checking arg --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Unknown arg --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Checking arg Thread compilers: Unknown arg Thread compilers: Checking arg model: compilers: Unknown arg model: compilers: Checking arg posix compilers: Unknown arg posix compilers: Checking arg gcc compilers: Unknown arg gcc compilers: Checking arg version compilers: Unknown arg version compilers: Checking arg 4.9.3 compilers: Unknown arg 4.9.3 compilers: Checking arg (GCC) compilers: Unknown arg (GCC) compilers: Checking arg COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Unknown arg COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Checking arg LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ compilers: Unknown arg LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 compilers: Checking arg -plugin compilers: Unknown arg -plugin compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so compilers: Checking arg -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Unknown arg -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Checking arg -plugin-opt=-fresolution=/tmp/ccmd3WEG.res compilers: Unknown arg -plugin-opt=-fresolution=/tmp/ccmd3WEG.res compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lc compilers: Unknown arg -plugin-opt=-pass-through=-lc compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg --eh-frame-hdr compilers: Unknown arg --eh-frame-hdr compilers: Checking arg -m compilers: Unknown arg -m compilers: Checking arg elf_x86_64 compilers: Unknown arg elf_x86_64 compilers: Checking arg -dynamic-linker compilers: Unknown arg -dynamic-linker compilers: Checking arg /lib64/ld-linux-x86-64.so.2 compilers: Unknown arg /lib64/ld-linux-x86-64.so.2 compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Checking arg /usr/lib/../lib64/crt1.o compilers: Unknown arg /usr/lib/../lib64/crt1.o compilers: Checking arg /usr/lib/../lib64/crti.o compilers: Unknown arg /usr/lib/../lib64/crti.o compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o compilers: Checking arg -L/opt/torque/lib compilers: Found library directory: -L/opt/torque/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/lib/../lib64 compilers: Checking arg -L/usr/lib/../lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../.. compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Checking arg -ldl compilers: Found library : -ldl compilers: Checking arg -rpath compilers: Found -rpath library: /opt/torque/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg --enable-new-dtags compilers: Unknown arg --enable-new-dtags compilers: Checking arg -lmpi compilers: Found library : -lmpi compilers: Checking arg -lgcc compilers: Skipping system library: -lgcc compilers: Checking arg --as-needed compilers: Unknown arg --as-needed compilers: Checking arg -lgcc_s compilers: Found library : -lgcc_s compilers: Checking arg --no-as-needed compilers: Unknown arg --no-as-needed compilers: Checking arg -lc compilers: Skipping system library: -lc compilers: Checking arg -lgcc compilers: Skipping system library: -lgcc compilers: Checking arg --as-needed compilers: Unknown arg --as-needed compilers: Checking arg -lgcc_s compilers: Checking arg --no-as-needed compilers: Unknown arg --no-as-needed compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o compilers: Checking arg /usr/lib/../lib64/crtn.o compilers: Unknown arg /usr/lib/../lib64/crtn.o compilers: Libraries needed to link C code with another linker: ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-ldl', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-lmpi', '-lgcc_s'] compilers: Check that C libraries can be used from Fortran Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language FC ================================================================================ TEST checkDependencyGenerationFlag from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1387) TESTING: checkDependencyGenerationFlag from config.compilers(config/BuildSystem/config/compilers.py:1387) Check if -MMD works for dependency generation, and add it if it does Trying C compiler flag -MMD -MP Defined make macro "C_DEPFLAGS" to "-MMD -MP" Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -MMD -MP /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Popping language C Trying Cxx compiler flag -MMD -MP Defined make macro "CXX_DEPFLAGS" to "-MMD -MP" Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC -MMD -MP /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Popping language Cxx Trying FC compiler flag -MMD -MP Defined make macro "FC_DEPFLAGS" to "-MMD -MP" Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -MMD -MP /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Popping language FC ================================================================================ TEST checkC99Flag from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1433) TESTING: checkC99Flag from config.compilers(config/BuildSystem/config/compilers.py:1433) Check for -std=c99 or equivalent flag Accepted C99 compile flag: -std=c99 Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:11:5: error: ‘for’ loop initial declarations are only allowed in C99 or C11 mode for (int i=0; i<2; i++){ ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:11:5: note: use option -std=c99, -std=gnu99, -std=c11 or -std=gnu11 to compile your code /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:7:11: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] float x[2],y; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { float x[2],y; y = FLT_ROUNDS; // c++ comment int j = 2; for (int i=0; i<2; i++){ x[i] = i*j*y; } ; return 0; } Rejecting compiler flag due to nonzero status from link Rejecting compiler flag due to /tmp/petsc-n3SpCv/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:11:5: error: ‘for’ loop initial declarations are only allowed in C99 or C11 mode for (int i=0; i<2; i++){ ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:11:5: note: use option -std=c99, -std=gnu99, -std=c11 or -std=gnu11 to compile your code /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:7:11: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] float x[2],y; ^ PETSc Error: No output file produced Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 -std=c99 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.setCompilers/conftest.c:7:11: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] float x[2],y; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { float x[2],y; y = FLT_ROUNDS; // c++ comment int j = 2; for (int i=0; i<2; i++){ x[i] = i*j*y; } ; return 0; } Popping language C ================================================================================ TEST checkRestrict from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:137) TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:137) Check for the C/CXX restrict keyword Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -V Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.compilers/conftest.cc: In function ‘int main()’: /tmp/petsc-n3SpCv/config.compilers/conftest.cc:5:20: warning: unused variable ‘x’ [-Wunused-variable] float * __restrict x;; ^ Source: #include "confdefs.h" #include "conffix.h" int main() { float * __restrict x;; return 0; } compilers: Set Cxx restrict keyword to __restrict Defined "CXX_RESTRICT" to "__restrict" Popping language Cxx ================================================================================ TEST checkCxxNamespace from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:373) TESTING: checkCxxNamespace from config.compilers(config/BuildSystem/config/compilers.py:373) Checks that C++ compiler supports namespaces, and if it does defines HAVE_CXX_NAMESPACE Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" namespace petsc {int dummy;} int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" template struct a {}; namespace trouble{ template struct a : public ::a {}; } trouble::a uugh; int main() { ; return 0; } Popping language Cxx compilers: C++ has namespaces Defined "HAVE_CXX_NAMESPACE" to "1" ================================================================================ TEST checkCxxOptionalExtensions from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:346) TESTING: checkCxxOptionalExtensions from config.compilers(config/BuildSystem/config/compilers.py:346) Check whether the C++ compiler (IBM xlC, OSF5) need special flag for .c files which contain C++ Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { class somename { int i; };; return 0; } Added Cxx compiler flag Popping language Cxx ================================================================================ TEST checkCxxStaticInline from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:122) TESTING: checkCxxStaticInline from config.compilers(config/BuildSystem/config/compilers.py:122) Check for C++ keyword: static inline Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" static inline int foo(int a) {return a;} int main() { foo(1);; return 0; } compilers: Set Cxx StaticInline keyword to static inline Popping language Cxx Defined "CXX_STATIC_INLINE" to "static inline" ================================================================================ TEST checkCxxLibraries from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:431) TESTING: checkCxxLibraries from config.compilers(config/BuildSystem/config/compilers.py:431) Determines the libraries needed to link with C++ Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.compilers/conftest -v -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.compilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: stderr: Using built-in specs. COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/g++ COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper Target: x86_64-unknown-linux-gnu Configured with: ../configure --enable-languages=c,c++,fortran --enable-lto --enable-checking=release --disable-multilib --enable-shared=yes --enable-static=yes --enable-threads=posix --enable-gold=default --enable-plugins --enable-ld --with-plugin-ld=ld.gold --enable-bootstrap --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 Thread model: posix gcc version 4.9.3 (GCC) COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-n3SpCv/config.compilers/conftest' '-v' '-Wall' '-Wwrite-strings' '-Wno-strict-aliasing' '-Wno-unknown-pragmas' '-fstack-protector' '-fvisibility=hidden' '-g' '-O' '-L/opt/torque/lib' '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib' '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib' '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib' '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib' '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib' '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64' '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib' '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib' '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib' '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib' '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib' '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib' '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib' '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib' '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib' '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib' '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib' '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib' '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib' '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib' '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib' '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib' '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib' '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib' '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib' '-I' '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include' '-L/opt/torque/lib' '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib' '-shared-libgcc' '-mtune=generic' '-march=x86-64' /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 -plugin /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper -plugin-opt=-fresolution=/tmp/ccs2RKv8.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 -o /tmp/petsc-n3SpCv/config.compilers/conftest /usr/lib/../lib64/crt1.o /usr/lib/../lib64/crti.o /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o -L/opt/torque/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/opt/torque/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../.. /tmp/petsc-n3SpCv/config.compilers/conftest.o -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -rpath /share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -rpath /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -rpath /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -rpath /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -rpath /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -rpath /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -rpath /share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -rpath /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -rpath /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -rpath /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -rpath /share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -rpath /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -rpath /share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -rpath /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -rpath /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib --enable-new-dtags -lmpi_cxx -lmpi -lstdc++ -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o /usr/lib/../lib64/crtn.o Popping language Cxx compilers: Checking arg Using compilers: Unknown arg Using compilers: Checking arg built-in compilers: Unknown arg built-in compilers: Checking arg specs. compilers: Unknown arg specs. compilers: Checking arg COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/g++ compilers: Unknown arg COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/g++ compilers: Checking arg COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Unknown arg COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Checking arg Target: compilers: Unknown arg Target: compilers: Checking arg x86_64-unknown-linux-gnu compilers: Unknown arg x86_64-unknown-linux-gnu compilers: Checking arg Configured compilers: Unknown arg Configured compilers: Checking arg with: compilers: Unknown arg with: compilers: Checking arg ../configure compilers: Unknown arg ../configure compilers: Checking arg --enable-languages=c,c++,fortran compilers: Unknown arg --enable-languages=c,c++,fortran compilers: Checking arg --enable-lto compilers: Unknown arg --enable-lto compilers: Checking arg --enable-checking=release compilers: Unknown arg --enable-checking=release compilers: Checking arg --disable-multilib compilers: Unknown arg --disable-multilib compilers: Checking arg --enable-shared=yes compilers: Unknown arg --enable-shared=yes compilers: Checking arg --enable-static=yes compilers: Unknown arg --enable-static=yes compilers: Checking arg --enable-threads=posix compilers: Unknown arg --enable-threads=posix compilers: Checking arg --enable-gold=default compilers: Unknown arg --enable-gold=default compilers: Checking arg --enable-plugins compilers: Unknown arg --enable-plugins compilers: Checking arg --enable-ld compilers: Unknown arg --enable-ld compilers: Checking arg --with-plugin-ld=ld.gold compilers: Unknown arg --with-plugin-ld=ld.gold compilers: Checking arg --enable-bootstrap compilers: Unknown arg --enable-bootstrap compilers: Checking arg --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Unknown arg --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Checking arg --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Unknown arg --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Checking arg Thread compilers: Unknown arg Thread compilers: Checking arg model: compilers: Unknown arg model: compilers: Checking arg posix compilers: Unknown arg posix compilers: Checking arg gcc compilers: Unknown arg gcc compilers: Checking arg version compilers: Unknown arg version compilers: Checking arg 4.9.3 compilers: Unknown arg 4.9.3 compilers: Checking arg (GCC) compilers: Unknown arg (GCC) compilers: Checking arg COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Unknown arg COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Checking arg LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ compilers: Unknown arg LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 compilers: Checking arg -plugin compilers: Unknown arg -plugin compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so compilers: Checking arg -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Unknown arg -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Checking arg -plugin-opt=-fresolution=/tmp/ccs2RKv8.res compilers: Unknown arg -plugin-opt=-fresolution=/tmp/ccs2RKv8.res compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lc compilers: Unknown arg -plugin-opt=-pass-through=-lc compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg --eh-frame-hdr compilers: Unknown arg --eh-frame-hdr compilers: Checking arg -m compilers: Unknown arg -m compilers: Checking arg elf_x86_64 compilers: Unknown arg elf_x86_64 compilers: Checking arg -dynamic-linker compilers: Unknown arg -dynamic-linker compilers: Checking arg /lib64/ld-linux-x86-64.so.2 compilers: Unknown arg /lib64/ld-linux-x86-64.so.2 compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Checking arg /usr/lib/../lib64/crt1.o compilers: Unknown arg /usr/lib/../lib64/crt1.o compilers: Checking arg /usr/lib/../lib64/crti.o compilers: Unknown arg /usr/lib/../lib64/crti.o compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o compilers: Checking arg -L/opt/torque/lib compilers: Found library directory: -L/opt/torque/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/opt/torque/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64 compilers: Checking arg -L/lib/../lib64 compilers: Checking arg -L/usr/lib/../lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../.. compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Checking arg -rpath compilers: Found -rpath library: /opt/torque/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -ldl compilers: Found library: -ldl Library already in C list so skipping in C++ compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -lmpi compilers: Found library: -lmpi Library already in C list so skipping in C++ compilers: Checking arg -lgcc_s compilers: Found library: -lgcc_s Library already in C list so skipping in C++ compilers: Checking arg -ldl compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg -rpath compilers: Already in rpathflags, skipping:-rpath compilers: Checking arg --enable-new-dtags compilers: Unknown arg --enable-new-dtags compilers: Checking arg -lmpi_cxx compilers: Found library: -lmpi_cxx compilers: Checking arg -lmpi compilers: Checking arg -lstdc++ compilers: Found library: -lstdc++ compilers: Checking arg -lm compilers: Found library: -lm compilers: Checking arg -lgcc_s compilers: Checking arg -lgcc compilers: Skipping system library: -lgcc compilers: Checking arg -lc compilers: Skipping system library: -lc compilers: Checking arg -lgcc_s compilers: Checking arg -lgcc compilers: Skipping system library: -lgcc compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o compilers: Checking arg /usr/lib/../lib64/crtn.o compilers: Unknown arg /usr/lib/../lib64/crtn.o compilers: Libraries needed to link Cxx code with another linker: ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_cxx', '-lstdc++', '-lm'] compilers: Check that Cxx libraries can be used from C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language C compilers: Check that Cxx libraries can be used from Fortran Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language FC ================================================================================ TEST checkCxx11 from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:388) TESTING: checkCxx11 from config.compilers(config/BuildSystem/config/compilers.py:388) Determine the option needed to support the C++11 dialect We auto-detect C++11 if the compiler supports it without options, otherwise we require with-cxx-dialect=C++11 to try adding flags to support it. Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Possible ERROR while running compiler: exit code 256 stderr: In file included from /share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/random:35:0, from /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:4: /share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/bits/c++0x_warning.h:32:2: error: #error This file requires compiler and library support for the ISO C++ 2011 standard. This support is currently experimental, and must be enabled with the -std=c++11 or -std=gnu++11 compiler options. #error This file requires compiler and library support for the \ ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:5:11: warning: identifier ‘constexpr’ is a keyword in C++11 [-Wc++0x-compat] template constexpr T Cubed( T x ) { return x*x*x; } ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:5:32: error: ‘constexpr’ does not name a type template constexpr T Cubed( T x ) { return x*x*x; } ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:5:32: note: C++11 ‘constexpr’ only available with -std=c++11 or -std=gnu++11 /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc: In function ‘int main()’: /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:10:11: error: ‘random_device’ is not a member of ‘std’ std::random_device rd; ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:11:11: error: ‘mt19937’ is not a member of ‘std’ std::mt19937 mt(rd()); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:12:11: error: ‘normal_distribution’ is not a member of ‘std’ std::normal_distribution dist(0,1); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:12:36: error: expected primary-expression before ‘double’ std::normal_distribution dist(0,1); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:13:33: error: ‘mt’ was not declared in this scope const double x = dist(mt); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:13:35: error: ‘dist’ was not declared in this scope const double x = dist(mt); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:13:24: warning: unused variable ‘x’ [-Wunused-variable] const double x = dist(mt); ^ Source: #include "confdefs.h" #include "conffix.h" #include template constexpr T Cubed( T x ) { return x*x*x; } int main() { std::random_device rd; std::mt19937 mt(rd()); std::normal_distribution dist(0,1); const double x = dist(mt); ; return 0; } Rejecting compiler flag due to nonzero status from link Rejecting compiler flag due to In file included from /share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/random:35:0, from /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:4: /share/apps/software/rhel6/software/GCCcore/4.9.3/include/c++/4.9.3/bits/c++0x_warning.h:32:2: error: #error This file requires compiler and library support for the ISO C++ 2011 standard. This support is currently experimental, and must be enabled with the -std=c++11 or -std=gnu++11 compiler options. #error This file requires compiler and library support for the \ ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:5:11: warning: identifier ‘constexpr’ is a keyword in C++11 [-Wc++0x-compat] template constexpr T Cubed( T x ) { return x*x*x; } ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:5:32: error: ‘constexpr’ does not name a type template constexpr T Cubed( T x ) { return x*x*x; } ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:5:32: note: C++11 ‘constexpr’ only available with -std=c++11 or -std=gnu++11 /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc: In function ‘int main()’: /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:10:11: error: ‘random_device’ is not a member of ‘std’ std::random_device rd; ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:11:11: error: ‘mt19937’ is not a member of ‘std’ std::mt19937 mt(rd()); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:12:11: error: ‘normal_distribution’ is not a member of ‘std’ std::normal_distribution dist(0,1); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:12:36: error: expected primary-expression before ‘double’ std::normal_distribution dist(0,1); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:13:33: error: ‘mt’ was not declared in this scope const double x = dist(mt); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:13:35: error: ‘dist’ was not declared in this scope const double x = dist(mt); ^ /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc:13:24: warning: unused variable ‘x’ [-Wunused-variable] const double x = dist(mt); ^ PETSc Error: No output file produced Popping language Cxx ================================================================================ TEST checkFortranTypeSizes from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:594) TESTING: checkFortranTypeSizes from config.compilers(config/BuildSystem/config/compilers.py:594) Check whether real*8 is supported and suggest flags which will allow support Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.compilers/conftest.F90:2.21: real*8 variable 1 Warning: Unused variable 'variable' declared at (1) Source: program main real*8 variable end Popping language FC ================================================================================ TEST checkFortranNameMangling from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:653) TESTING: checkFortranNameMangling from config.compilers(config/BuildSystem/config/compilers.py:653) Checks Fortran name mangling, and defines HAVE_FORTRAN_UNDERSCORE, HAVE_FORTRAN_NOUNDERSCORE, HAVE_FORTRAN_CAPS, or HAVE_FORTRAN_STDCALL Testing Fortran mangling type underscore with code void d1chk_(void){return;} Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void d1chk_(void){return;} Popping language C Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main call d1chk() end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o /tmp/petsc-n3SpCv/config.compilers/confc.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language FC compilers: Fortran name mangling is underscore Defined "HAVE_FORTRAN_UNDERSCORE" to "1" ================================================================================ TEST checkFortranNameManglingDouble from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:690) TESTING: checkFortranNameManglingDouble from config.compilers(config/BuildSystem/config/compilers.py:690) Checks if symbols containing an underscore append an extra underscore, and defines HAVE_FORTRAN_UNDERSCORE_UNDERSCORE if necessary Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void d1_chk__(void){return;} Popping language C Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main call d1_chk() end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o /tmp/petsc-n3SpCv/config.compilers/confc.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.compilers/conftest.o:conftest.F90:function main: error: undefined reference to 'd1_chk_' collect2: error: ld returned 1 exit status Popping language FC ================================================================================ TEST checkFortranPreprocessor from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:700) TESTING: checkFortranPreprocessor from config.compilers(config/BuildSystem/config/compilers.py:700) Determine if Fortran handles preprocessing properly compilers: Fortran uses CPP preprocessor Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main #define dummy dummy #ifndef dummy fooey #endif end Added FC compiler flag Popping language FC ================================================================================ TEST checkFortranDefineCompilerOption from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:724) TESTING: checkFortranDefineCompilerOption from config.compilers(config/BuildSystem/config/compilers.py:724) Check if -WF,-Dfoobar or -Dfoobar is the compiler option to define a macro Defined make macro "FC_DEFINE_FLAG" to "-D" compilers: Fortran uses -D for defining macro Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -DTesting /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main #define dummy dummy #ifndef Testing fooey #endif end Popping language FC ================================================================================ TEST checkFortranLibraries from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:744) TESTING: checkFortranLibraries from config.compilers(config/BuildSystem/config/compilers.py:744) Substitutes for FLIBS the libraries needed to link with Fortran This macro is intended to be used in those situations when it is necessary to mix, e.g. C++ and Fortran 77, source code into a single program or shared library. For example, if object files from a C++ and Fortran 77 compiler must be linked together, then the C++ compiler/linker must be used for linking (since special C++-ish things need to happen at link time like calling global constructors, instantiating templates, enabling exception support, etc.). However, the Fortran 77 intrinsic and run-time libraries must be linked in as well, but the C++ compiler/linker does not know how to add these Fortran 77 libraries. This code was translated from the autoconf macro which was packaged in its current form by Matthew D. Langston . However, nearly all of this macro came from the OCTAVE_FLIBS macro in octave-2.0.13/aclocal.m4, and full credit should go to John W. Eaton for writing this extremely useful macro. Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -V Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -v -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: stderr: Driving: /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gfortran -o /tmp/petsc-n3SpCv/config.compilers/conftest -v -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi -l gfortran -l m -shared-libgcc Using built-in specs. COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gfortran COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper Target: x86_64-unknown-linux-gnu Configured with: ../configure --enable-languages=c,c++,fortran --enable-lto --enable-checking=release --disable-multilib --enable-shared=yes --enable-static=yes --enable-threads=posix --enable-gold=default --enable-plugins --enable-ld --with-plugin-ld=ld.gold --enable-bootstrap --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 Thread model: posix gcc version 4.9.3 (GCC) Reading specs from /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/libgfortran.spec rename spec lib to liborig COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-n3SpCv/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-L/opt/torque/lib' 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COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-n3SpCv/config.compilers/conftest' '-v' '-fPIC' '-Wall' '-ffree-line-length-0' '-Wno-unused-dummy-argument' '-O3' '-L/opt/torque/lib' '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib' '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3' '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64' '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib' '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib' '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib' '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib' '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64' 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-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/opt/torque/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../.. /tmp/petsc-n3SpCv/config.compilers/conftest.o -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -rpath /share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -rpath /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -rpath /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -rpath /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -rpath /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -rpath /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -rpath /share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -rpath /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -rpath /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -rpath /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -rpath /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -rpath /share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -rpath /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -rpath /share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -rpath /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -rpath /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -rpath /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib -rpath /share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -rpath /opt/torque/lib -rpath /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib --enable-new-dtags -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi -lgfortran -lm -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o /usr/lib/../lib64/crtn.o Popping language FC compilers: Checking arg Driving: compilers: Unknown arg Driving: compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gfortran compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gfortran compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Checking arg -v compilers: Unknown arg -v compilers: Checking arg -fPIC compilers: Unknown arg -fPIC compilers: Checking arg -Wall compilers: Unknown arg -Wall compilers: Checking arg -ffree-line-length-0 compilers: Unknown arg -ffree-line-length-0 compilers: Checking arg -Wno-unused-dummy-argument compilers: Unknown arg -Wno-unused-dummy-argument compilers: Checking arg -O3 compilers: Unknown arg -O3 compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Checking arg -Wl,-rpath,/opt/torque/lib compilers: Unknown arg -Wl,-rpath,/opt/torque/lib compilers: Checking arg -L/opt/torque/lib compilers: Found library directory: -L/opt/torque/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Found library directory: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -ldl compilers: Found library: -ldl Library already in C list so skipping in Fortran compilers: Checking arg -Wl,-rpath,/opt/torque/lib compilers: Unknown arg -Wl,-rpath,/opt/torque/lib compilers: Checking arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Unknown arg -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -lmpi compilers: Found library: -lmpi Library already in C list so skipping in Fortran compilers: Checking arg -lgcc_s compilers: Found library: -lgcc_s Library already in C list so skipping in Fortran compilers: Checking arg -ldl compilers: Already in lflags: -ldl compilers: Checking arg -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include compilers: Found include directory: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include compilers: Checking arg -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Found include directory: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/opt/torque/lib compilers: Already in lflags so skipping: -L/opt/torque/lib compilers: Checking arg -Wl,-rpath compilers: Unknown arg -Wl,-rpath compilers: Checking arg -Wl,/opt/torque/lib compilers: Unknown arg -Wl,/opt/torque/lib compilers: Checking arg -Wl,-rpath compilers: Unknown arg -Wl,-rpath compilers: Checking arg -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Unknown arg -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -Wl,--enable-new-dtags compilers: Unknown arg -Wl,--enable-new-dtags compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -lmpi_usempif08 compilers: Found library: -lmpi_usempif08 compilers: Checking arg -lmpi_usempi_ignore_tkr compilers: Found library: -lmpi_usempi_ignore_tkr compilers: Checking arg -lmpi_mpifh compilers: Found library: -lmpi_mpifh compilers: Checking arg -lmpi compilers: Already in lflags: -lmpi compilers: Checking arg -l compilers: Found canonical library: -lgfortran compilers: Checking arg -l compilers: Found canonical library: -lm compilers: Checking arg -shared-libgcc compilers: Unknown arg -shared-libgcc compilers: Checking arg Using compilers: Unknown arg Using compilers: Checking arg built-in compilers: Unknown arg built-in compilers: Checking arg specs. compilers: Unknown arg specs. compilers: Checking arg COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gfortran compilers: Unknown arg COLLECT_GCC=/share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gfortran compilers: Checking arg COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Unknown arg COLLECT_LTO_WRAPPER=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Checking arg Target: compilers: Unknown arg Target: compilers: Checking arg x86_64-unknown-linux-gnu compilers: Unknown arg x86_64-unknown-linux-gnu compilers: Checking arg Configured compilers: Unknown arg Configured compilers: Checking arg with: compilers: Unknown arg with: compilers: Checking arg ../configure compilers: Unknown arg ../configure compilers: Checking arg --enable-languages=c,c++,fortran compilers: Unknown arg --enable-languages=c,c++,fortran compilers: Checking arg --enable-lto compilers: Unknown arg --enable-lto compilers: Checking arg --enable-checking=release compilers: Unknown arg --enable-checking=release compilers: Checking arg --disable-multilib compilers: Unknown arg --disable-multilib compilers: Checking arg --enable-shared=yes compilers: Unknown arg --enable-shared=yes compilers: Checking arg --enable-static=yes compilers: Unknown arg --enable-static=yes compilers: Checking arg --enable-threads=posix compilers: Unknown arg --enable-threads=posix compilers: Checking arg --enable-gold=default compilers: Unknown arg --enable-gold=default compilers: Checking arg --enable-plugins compilers: Unknown arg --enable-plugins compilers: Checking arg --enable-ld compilers: Unknown arg --enable-ld compilers: Checking arg --with-plugin-ld=ld.gold compilers: Unknown arg --with-plugin-ld=ld.gold compilers: Checking arg --enable-bootstrap compilers: Unknown arg --enable-bootstrap compilers: Checking arg --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Unknown arg --prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Checking arg --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Unknown arg --with-local-prefix=/share/apps/software/rhel6/software/GCCcore/4.9.3 compilers: Checking arg Thread compilers: Unknown arg Thread compilers: Checking arg model: compilers: Unknown arg model: compilers: Checking arg posix compilers: Unknown arg posix compilers: Checking arg gcc compilers: Unknown arg gcc compilers: Checking arg version compilers: Unknown arg version compilers: Checking arg 4.9.3 compilers: Unknown arg 4.9.3 compilers: Checking arg (GCC) compilers: Unknown arg (GCC) compilers: Checking arg Reading compilers: Unknown arg Reading compilers: Checking arg specs compilers: Unknown arg specs compilers: Checking arg from compilers: Unknown arg from compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/libgfortran.spec compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/libgfortran.spec compilers: Checking arg rename compilers: Unknown arg rename compilers: Checking arg spec compilers: Unknown arg spec compilers: Checking arg lib compilers: Unknown arg lib compilers: Checking arg to compilers: Unknown arg to compilers: Checking arg liborig compilers: Unknown arg liborig compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Skipping arg COMPILER_PATH=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Checking arg LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ compilers: Skipping arg LIBRARY_PATH=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib/:/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib/:/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib/:/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib/:/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/:/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib/:/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/:/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib/:/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib/:/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib/:/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib/:/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib/:/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib/:/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib/:/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib/:/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib/:/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib/:/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib/:/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib/:/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib/:/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/:/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../:/lib/:/usr/lib/ compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/collect2 compilers: Checking arg -plugin compilers: Unknown arg -plugin compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/liblto_plugin.so compilers: Checking arg -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Unknown arg -plugin-opt=/share/apps/software/rhel6/software/GCCcore/4.9.3/libexec/gcc/x86_64-unknown-linux-gnu/4.9.3/lto-wrapper compilers: Checking arg -plugin-opt=-fresolution=/tmp/ccfzMVMg.res compilers: Unknown arg -plugin-opt=-fresolution=/tmp/ccfzMVMg.res compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lquadmath compilers: Unknown arg -plugin-opt=-pass-through=-lquadmath compilers: Checking arg -plugin-opt=-pass-through=-lm compilers: Unknown arg -plugin-opt=-pass-through=-lm compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg -plugin-opt=-pass-through=-lc compilers: Unknown arg -plugin-opt=-pass-through=-lc compilers: Checking arg -plugin-opt=-pass-through=-lgcc_s compilers: Unknown arg -plugin-opt=-pass-through=-lgcc_s compilers: Checking arg -plugin-opt=-pass-through=-lgcc compilers: Unknown arg -plugin-opt=-pass-through=-lgcc compilers: Checking arg --eh-frame-hdr compilers: Unknown arg --eh-frame-hdr compilers: Checking arg -m compilers: Unknown arg -m compilers: Checking arg elf_x86_64 compilers: Unknown arg elf_x86_64 compilers: Checking arg -dynamic-linker compilers: Unknown arg -dynamic-linker compilers: Checking arg /lib64/ld-linux-x86-64.so.2 compilers: Unknown arg /lib64/ld-linux-x86-64.so.2 compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest compilers: Checking arg /usr/lib/../lib64/crt1.o compilers: Unknown arg /usr/lib/../lib64/crt1.o compilers: Checking arg /usr/lib/../lib64/crti.o compilers: Unknown arg /usr/lib/../lib64/crti.o compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtbegin.o compilers: Checking arg -L/opt/torque/lib compilers: Already in lflags so skipping: -L/opt/torque/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/opt/torque/lib compilers: Already in lflags so skipping: -L/opt/torque/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/../lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64/../lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/../lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../../../lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/lib/../lib64 compilers: Checking arg -L/usr/lib/../lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/../../.. compilers: Already in lflags so skipping: -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-n3SpCv/config.compilers/conftest.o compilers: Checking arg -rpath compilers: Found -rpath library: /opt/torque/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Found -rpath library: /share/apps/software/rhel6/software/GCCcore/4.9.3/lib compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -ldl compilers: Already in lflags: -ldl compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -lmpi compilers: Already in lflags: -lmpi compilers: Checking arg -lgcc_s compilers: Already in lflags: -lgcc_s compilers: Checking arg -ldl compilers: Already in lflags: -ldl compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg -rpath compilers: Already in rpathflags so skipping: -rpath compilers: Checking arg --enable-new-dtags compilers: Unknown arg --enable-new-dtags compilers: Checking arg -lmpi_usempif08 compilers: Already in lflags: -lmpi_usempif08 compilers: Checking arg -lmpi_usempi_ignore_tkr compilers: Already in lflags: -lmpi_usempi_ignore_tkr compilers: Checking arg -lmpi_mpifh compilers: Already in lflags: -lmpi_mpifh compilers: Checking arg -lmpi compilers: Already in lflags: -lmpi compilers: Checking arg -lgfortran compilers: Found library: -lgfortran compilers: Checking arg -lm compilers: Found library: -lm compilers: Checking arg -lgcc_s compilers: Already in lflags: -lgcc_s compilers: Checking arg -lgcc compilers: Found system library therefor skipping: -lgcc compilers: Checking arg -lquadmath compilers: Found library: -lquadmath compilers: Checking arg -lm compilers: Already in lflags: -lm compilers: Checking arg -lgcc_s compilers: Already in lflags: -lgcc_s compilers: Checking arg -lgcc compilers: Found system library therefor skipping: -lgcc compilers: Checking arg -lc compilers: Found system library therefor skipping: -lc compilers: Checking arg -lgcc_s compilers: Already in lflags: -lgcc_s compilers: Checking arg -lgcc compilers: Found system library therefor skipping: -lgcc compilers: Checking arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o compilers: Unknown arg /share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/crtend.o compilers: Checking arg /usr/lib/../lib64/crtn.o compilers: Unknown arg /usr/lib/../lib64/crtn.o compilers: Libraries needed to link Fortran code with the C linker: ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] compilers: Libraries needed to link Fortran main with the C linker: [] compilers: Check that Fortran libraries can be used from C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 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-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib 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-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language C compilers: Check that Fortran libraries can be used from C++ Pushing language CXX Popping language CXX Pushing language CXX Popping language CXX Pushing language CXX Popping language CXX compilers: Fortran libraries can be used from C++ Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.setCompilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Executing: /tmp/petsc-n3SpCv/config.setCompilers/conftest Popping language Cxx ================================================================================ TEST checkFortranLinkingCxx from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1095) TESTING: checkFortranLinkingCxx from config.compilers(config/BuildSystem/config/compilers.py:1095) Check that Fortran can be linked against C++ Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern "C" void d1chk_(void); void foo(void){d1chk_();} Popping language Cxx Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern "C" void d1chk_(void); void d1chk_(void){return;} Popping language Cxx Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main call d1chk() end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o /tmp/petsc-n3SpCv/config.compilers/cxxobj.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language FC compilers: Fortran can link C++ functions ================================================================================ TEST checkFortran90 from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1130) TESTING: checkFortran90 from config.compilers(config/BuildSystem/config/compilers.py:1130) Determine whether the Fortran compiler handles F90 Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8) INTEGER (KIND=int) :: ierr ierr = 1 end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "USING_F90" to "1" Fortran compiler supports F90 Popping language FC ================================================================================ TEST checkFortran90FreeForm from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1143) TESTING: checkFortran90FreeForm from config.compilers(config/BuildSystem/config/compilers.py:1143) Determine whether the Fortran compiler handles F90FreeForm We also require that the compiler handles lines longer than 132 characters Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8); INTEGER (KIND=int) :: ierr; ierr = 1 end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "USING_F90FREEFORM" to "1" Fortran compiler supports F90FreeForm Popping language FC ================================================================================ TEST checkFortran2003 from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1157) TESTING: checkFortran2003 from config.compilers(config/BuildSystem/config/compilers.py:1157) Determine whether the Fortran compiler handles F2003 Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.compilers/conftest.F90: In function ‘main’: /tmp/petsc-n3SpCv/config.compilers/conftest.F90:22:0: warning: ‘carray.dim[0].lbound’ may be used uninitialized in this function [-Wmaybe-uninitialized] CArray = (/(c_loc(list1(i)),i=1,5),c_loc(nullc)/) ^ /tmp/petsc-n3SpCv/config.compilers/conftest.F90:17:0: note: ‘carray.dim[0].lbound’ was declared here Type(C_Ptr),Dimension(:),Pointer :: CArray ^ /tmp/petsc-n3SpCv/config.compilers/conftest.F90:22:0: warning: ‘carray.dim[0].stride’ may be used uninitialized in this function [-Wmaybe-uninitialized] CArray = (/(c_loc(list1(i)),i=1,5),c_loc(nullc)/) ^ /tmp/petsc-n3SpCv/config.compilers/conftest.F90:17:0: note: ‘carray.dim[0].stride’ was declared here Type(C_Ptr),Dimension(:),Pointer :: CArray ^ /tmp/petsc-n3SpCv/config.compilers/conftest.F90:22:0: warning: ‘carray.offset’ may be used uninitialized in this function [-Wmaybe-uninitialized] CArray = (/(c_loc(list1(i)),i=1,5),c_loc(nullc)/) ^ /tmp/petsc-n3SpCv/config.compilers/conftest.F90:17:0: note: ‘carray.offset’ was declared here Type(C_Ptr),Dimension(:),Pointer :: CArray ^ Source: module Base_module type, public :: base_type integer :: A contains procedure, public :: Print => BasePrint end type base_type contains subroutine BasePrint(this) class(base_type) :: this end subroutine BasePrint end module Base_module program main use,intrinsic :: iso_c_binding Type(C_Ptr),Dimension(:),Pointer :: CArray character(kind=c_char),pointer :: nullc => null() character(kind=c_char,len=5),dimension(:),pointer::list1 allocate(list1(5)) CArray = (/(c_loc(list1(i)),i=1,5),c_loc(nullc)/) end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "USING_F2003" to "1" Fortran compiler supports F2003 Popping language FC ================================================================================ TEST checkFortran90Array from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1189) TESTING: checkFortran90Array from config.compilers(config/BuildSystem/config/compilers.py:1189) Check for F90 array interfaces Executing: uname -s stdout: Linux Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include void f90arraytest_(void* a1, void* a2,void* a3, void* i) { printf("arrays [%p %p %p]\n",a1,a2,a3); fflush(stdout); return; } void f90ptrtest_(void* a1, void* a2,void* a3, void* i, void* p1 ,void* p2, void* p3) { printf("arrays [%p %p %p]\n",a1,a2,a3); if ((p1 == p3) && (p1 != p2)) { printf("pointers match! [%p %p] [%p]\n",p1,p3,p2); fflush(stdout); } else { printf("pointers do not match! [%p %p] [%p]\n",p1,p3,p2); fflush(stdout); exit(111); } return; } Popping language C Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main Interface Subroutine f90ptrtest(p1,p2,p3,i) integer, pointer :: p1(:,:) integer, pointer :: p2(:,:) integer, pointer :: p3(:,:) integer i End Subroutine End Interface integer, pointer :: ptr1(:,:),ptr2(:,:) integer, target :: array(6:8,9:21) integer in in = 25 ptr1 => array ptr2 => array call f90arraytest(ptr1,ptr2,ptr1,in) call f90ptrtest(ptr1,ptr2,ptr1,in) end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o /tmp/petsc-n3SpCv/config.compilers/fooobj.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.compilers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.compilers/conftest Executing: /tmp/petsc-n3SpCv/config.compilers/conftest stdout: arrays [0x7ffe7def47d0 0x7ffe7def47d0 0x7ffe7def47d0] arrays [0x7ffe7def4730 0x7ffe7def4780 0x7ffe7def4730] pointers do not match! [0xffffffff (nil)] [(nil)] ERROR while running executable: Could not execute "/tmp/petsc-n3SpCv/config.compilers/conftest": arrays [0x7ffe7def47d0 0x7ffe7def47d0 0x7ffe7def47d0] arrays [0x7ffe7def4730 0x7ffe7def4780 0x7ffe7def4730] pointers do not match! [0xffffffff (nil)] [(nil)] Popping language FC compilers: F90 uses a single argument for array pointers ================================================================================ TEST checkFortranModuleInclude from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1276) TESTING: checkFortranModuleInclude from config.compilers(config/BuildSystem/config/compilers.py:1276) Figures out what flag is used to specify the include path for Fortran modules Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: module configtest integer testint parameter (testint = 42) end module configtest Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.compilers/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: program main use configtest write(*,*) testint end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.compilers/conftest -I/tmp/petsc-n3SpCv/config.compilers/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.o /tmp/petsc-n3SpCv/config.compilers/configtest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl compilers: Fortran module include flag -I found Popping language FC ================================================================================ TEST checkFortranModuleOutput from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1342) TESTING: checkFortranModuleOutput from config.compilers(config/BuildSystem/config/compilers.py:1342) Figures out what flag is used to specify the include path for Fortran modules Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -module /tmp/petsc-n3SpCv/config.compilers/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 256 stderr: gfortran: error: unrecognized command line option ‘-module’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -module compile failed Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -module:/tmp/petsc-n3SpCv/config.compilers/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 256 stderr: gfortran: error: unrecognized command line option ‘-module:/tmp/petsc-n3SpCv/config.compilers/confdir’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -module: compile failed Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fmod=/tmp/petsc-n3SpCv/config.compilers/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 256 stderr: gfortran: error: unrecognized command line option ‘-fmod=/tmp/petsc-n3SpCv/config.compilers/confdir’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -fmod= compile failed Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.compilers/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -J/tmp/petsc-n3SpCv/config.compilers/confdir -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.compilers/conftest.F90 Successful compile: Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -J found Popping language FC ================================================================================ TEST setupFrameworkCompilers from config.compilers(/global/home/thl/petsc/config/BuildSystem/config/compilers.py:1501) TESTING: setupFrameworkCompilers from config.compilers(config/BuildSystem/config/compilers.py:1501) ================================================================================ TEST configureClosure from config.utilities.closure(/global/home/thl/petsc/config/BuildSystem/config/utilities/closure.py:18) TESTING: configureClosure from config.utilities.closure(config/BuildSystem/config/utilities/closure.py:18) Determine if Apple ^close syntax is supported in C Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv/config.utilities.closure Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.closure/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.closure/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.utilities.closure/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.utilities.closure/conftest.c:6:6: error: expected identifier or ‘(’ before ‘^’ token int (^closure)(int);; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int (^closure)(int);; return 0; } Compile failed inside link ================================================================================ TEST configureFortranCPP from PETSc.options.fortranCPP(/global/home/thl/petsc/config/PETSc/options/fortranCPP.py:21) TESTING: configureFortranCPP from PETSc.options.fortranCPP(config/PETSc/options/fortranCPP.py:21) Handle case where Fortran cannot preprocess properly Defined make rule ".f.o .f90.o .f95.o" with dependencies "" and code ['${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} -o $@ $<'] Defined make rule ".f.a" with dependencies "" and code ['${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} $<', '-${AR} ${AR_FLAGS} ${LIBNAME} $*.o', '-${RM} $*.o'] Defined make rule ".F.o .F90.o .F95.o" with dependencies "" and code ['${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} ${FCPPFLAGS} -o $@ $<'] Defined make rule ".F.a" with dependencies "" and code ['${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} ${FCPPFLAGS} $<', '-${AR} ${AR_FLAGS} ${LIBNAME} $*.o', '-${RM} $*.o'] ================================================================================ TEST checkStdC from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:105) TESTING: checkStdC from config.headers(config/BuildSystem/config/headers.py:105) Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.headers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include int main() { ; return 0; } Source: #include "confdefs.h" #include "conffix.h" #include Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/string.h" 1 3 4 # 27 "/usr/include/string.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/string.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 35 "/usr/include/string.h" 2 3 4 extern void *memcpy (void *__restrict __dest, __const void *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memmove (void *__dest, __const void *__src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memccpy (void *__restrict __dest, __const void *__restrict __src, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memset (void *__s, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int memcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 95 "/usr/include/string.h" 3 4 extern void *memchr (__const void *__s, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 126 "/usr/include/string.h" 3 4 extern char *strcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strcat (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strncat (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int strcmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strncmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strcoll (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern size_t strxfrm (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 163 "/usr/include/string.h" 2 3 4 extern int strcoll_l (__const char *__s1, __const char *__s2, __locale_t __l) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2, 3))); extern size_t strxfrm_l (char *__dest, __const char *__src, size_t __n, __locale_t __l) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern char *strdup (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) __attribute__ ((__nonnull__ (1))); extern char *strndup (__const char *__string, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) __attribute__ ((__nonnull__ (1))); # 210 "/usr/include/string.h" 3 4 # 235 "/usr/include/string.h" 3 4 extern char *strchr (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 262 "/usr/include/string.h" 3 4 extern char *strrchr (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 281 "/usr/include/string.h" 3 4 extern size_t strcspn (__const char *__s, __const char *__reject) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern size_t strspn (__const char *__s, __const char *__accept) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 314 "/usr/include/string.h" 3 4 extern char *strpbrk (__const char *__s, __const char *__accept) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 342 "/usr/include/string.h" 3 4 extern char *strstr (__const char *__haystack, __const char *__needle) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strtok (char *__restrict __s, __const char *__restrict __delim) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *__strtok_r (char *__restrict __s, __const char *__restrict __delim, char **__restrict __save_ptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern char *strtok_r (char *__restrict __s, __const char *__restrict __delim, char **__restrict __save_ptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); # 397 "/usr/include/string.h" 3 4 extern size_t strlen (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern size_t strnlen (__const char *__string, size_t __maxlen) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern char *strerror (int __errnum) __attribute__ ((__nothrow__)); # 427 "/usr/include/string.h" 3 4 extern int strerror_r (int __errnum, char *__buf, size_t __buflen) __asm__ ("" "__xpg_strerror_r") __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 445 "/usr/include/string.h" 3 4 extern char *strerror_l (int __errnum, __locale_t __l) __attribute__ ((__nothrow__)); extern void __bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void bcopy (__const void *__src, void *__dest, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int bcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 489 "/usr/include/string.h" 3 4 extern char *index (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 517 "/usr/include/string.h" 3 4 extern char *rindex (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern int ffs (int __i) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 536 "/usr/include/string.h" 3 4 extern int strcasecmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strncasecmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 559 "/usr/include/string.h" 3 4 extern char *strsep (char **__restrict __stringp, __const char *__restrict __delim) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strsignal (int __sig) __attribute__ ((__nothrow__)); extern char *__stpcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *stpcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *__stpncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *stpncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); # 646 "/usr/include/string.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Source: #include "confdefs.h" #include "conffix.h" #include Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/stdlib.h" 1 3 4 # 25 "/usr/include/stdlib.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 26 "/usr/include/stdlib.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 34 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitflags.h" 1 3 4 # 43 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitstatus.h" 1 3 4 # 65 "/usr/include/bits/waitstatus.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 66 "/usr/include/bits/waitstatus.h" 2 3 4 union wait { int w_status; struct { unsigned int __w_termsig:7; unsigned int __w_coredump:1; unsigned int __w_retcode:8; unsigned int:16; } __wait_terminated; struct { unsigned int __w_stopval:8; unsigned int __w_stopsig:8; unsigned int:16; } __wait_stopped; }; # 44 "/usr/include/stdlib.h" 2 3 4 # 68 "/usr/include/stdlib.h" 3 4 typedef union { union wait *__uptr; int *__iptr; } __WAIT_STATUS __attribute__ ((__transparent_union__)); # 96 "/usr/include/stdlib.h" 3 4 typedef struct { int quot; int rem; } div_t; typedef struct { long int quot; long int rem; } ldiv_t; __extension__ typedef struct { long long int quot; long long int rem; } lldiv_t; # 140 "/usr/include/stdlib.h" 3 4 extern size_t __ctype_get_mb_cur_max (void) __attribute__ ((__nothrow__)) ; extern double atof (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern int atoi (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern long int atol (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int atoll (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern double strtod (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern float strtof (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long double strtold (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long int strtol (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern unsigned long int strtoul (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtouq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoll (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtoull (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 311 "/usr/include/stdlib.h" 3 4 extern char *l64a (long int __n) __attribute__ ((__nothrow__)) ; extern long int a64l (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 220 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 321 "/usr/include/stdlib.h" 2 3 4 extern long int random (void) __attribute__ ((__nothrow__)); extern void srandom (unsigned int __seed) __attribute__ ((__nothrow__)); extern char *initstate (unsigned int __seed, char *__statebuf, size_t __statelen) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *setstate (char *__statebuf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct random_data { int32_t *fptr; int32_t *rptr; int32_t *state; int rand_type; int rand_deg; int rand_sep; int32_t *end_ptr; }; extern int random_r (struct random_data *__restrict __buf, int32_t *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srandom_r (unsigned int __seed, struct random_data *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int initstate_r (unsigned int __seed, char *__restrict __statebuf, size_t __statelen, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern int setstate_r (char *__restrict __statebuf, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int rand (void) __attribute__ ((__nothrow__)); extern void srand (unsigned int __seed) __attribute__ ((__nothrow__)); extern int rand_r (unsigned int *__seed) __attribute__ ((__nothrow__)); extern double drand48 (void) __attribute__ ((__nothrow__)); extern double erand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int lrand48 (void) __attribute__ ((__nothrow__)); extern long int nrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int mrand48 (void) __attribute__ ((__nothrow__)); extern long int jrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void srand48 (long int __seedval) __attribute__ ((__nothrow__)); extern unsigned short int *seed48 (unsigned short int __seed16v[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void lcong48 (unsigned short int __param[7]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct drand48_data { unsigned short int __x[3]; unsigned short int __old_x[3]; unsigned short int __c; unsigned short int __init; unsigned long long int __a; }; extern int drand48_r (struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int erand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int nrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int mrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int jrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srand48_r (long int __seedval, struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int seed48_r (unsigned short int __seed16v[3], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lcong48_r (unsigned short int __param[7], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *malloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *calloc (size_t __nmemb, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *realloc (void *__ptr, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__warn_unused_result__)); extern void free (void *__ptr) __attribute__ ((__nothrow__)); extern void cfree (void *__ptr) __attribute__ ((__nothrow__)); # 1 "/usr/include/alloca.h" 1 3 4 # 25 "/usr/include/alloca.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 26 "/usr/include/alloca.h" 2 3 4 extern void *alloca (size_t __size) __attribute__ ((__nothrow__)); # 498 "/usr/include/stdlib.h" 2 3 4 extern void *valloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int posix_memalign (void **__memptr, size_t __alignment, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern void abort (void) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern int atexit (void (*__func) (void)) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 531 "/usr/include/stdlib.h" 3 4 extern int on_exit (void (*__func) (int __status, void *__arg), void *__arg) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); # 554 "/usr/include/stdlib.h" 3 4 extern void _Exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern char *getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern char *__secure_getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int putenv (char *__string) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int setenv (__const char *__name, __const char *__value, int __replace) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int unsetenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int clearenv (void) __attribute__ ((__nothrow__)); # 606 "/usr/include/stdlib.h" 3 4 extern char *mktemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 620 "/usr/include/stdlib.h" 3 4 extern int mkstemp (char *__template) __attribute__ ((__nonnull__ (1))) ; # 642 "/usr/include/stdlib.h" 3 4 extern int mkstemps (char *__template, int __suffixlen) __attribute__ ((__nonnull__ (1))) ; # 663 "/usr/include/stdlib.h" 3 4 extern char *mkdtemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 712 "/usr/include/stdlib.h" 3 4 extern int system (__const char *__command) ; # 734 "/usr/include/stdlib.h" 3 4 extern char *realpath (__const char *__restrict __name, char *__restrict __resolved) __attribute__ ((__nothrow__)) ; typedef int (*__compar_fn_t) (__const void *, __const void *); # 752 "/usr/include/stdlib.h" 3 4 extern void *bsearch (__const void *__key, __const void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 2, 5))) ; extern void qsort (void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 4))); # 771 "/usr/include/stdlib.h" 3 4 extern int abs (int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern long int labs (long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern long long int llabs (long long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern div_t div (int __numer, int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern ldiv_t ldiv (long int __numer, long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern lldiv_t lldiv (long long int __numer, long long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; # 808 "/usr/include/stdlib.h" 3 4 extern char *ecvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *fcvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *gcvt (double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern char *qecvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qfcvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qgcvt (long double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern int ecvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int fcvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qecvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qfcvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int mblen (__const char *__s, size_t __n) __attribute__ ((__nothrow__)) ; extern int mbtowc (wchar_t *__restrict __pwc, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)) ; extern int wctomb (char *__s, wchar_t __wchar) __attribute__ ((__nothrow__)) ; extern size_t mbstowcs (wchar_t *__restrict __pwcs, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)); extern size_t wcstombs (char *__restrict __s, __const wchar_t *__restrict __pwcs, size_t __n) __attribute__ ((__nothrow__)); extern int rpmatch (__const char *__response) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 896 "/usr/include/stdlib.h" 3 4 extern int getsubopt (char **__restrict __optionp, char *__const *__restrict __tokens, char **__restrict __valuep) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2, 3))) ; # 948 "/usr/include/stdlib.h" 3 4 extern int getloadavg (double __loadavg[], int __nelem) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 964 "/usr/include/stdlib.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.headers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #define ISLOWER(c) ('a' <= (c) && (c) <= 'z') #define TOUPPER(c) (ISLOWER(c) ? 'A' + ((c) - 'a') : (c)) #define XOR(e, f) (((e) && !(f)) || (!(e) && (f))) int main() { int i; for(i = 0; i < 256; i++) if (XOR(islower(i), ISLOWER(i)) || toupper(i) != TOUPPER(i)) exit(2); exit(0); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.headers/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.headers/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.headers/conftest Executing: /tmp/petsc-n3SpCv/config.headers/conftest Defined "STDC_HEADERS" to "1" ================================================================================ TEST checkStat from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:138) TESTING: checkStat from config.headers(config/BuildSystem/config/headers.py:138) Checks whether stat file-mode macros are broken, and defines STAT_MACROS_BROKEN if they are Source: #include "confdefs.h" #include "conffix.h" #include #include #if defined(S_ISBLK) && defined(S_IFDIR) # if S_ISBLK (S_IFDIR) You lose. # endif #endif #if defined(S_ISBLK) && defined(S_IFCHR) # if S_ISBLK (S_IFCHR) You lose. # endif #endif #if defined(S_ISLNK) && defined(S_IFREG) # if S_ISLNK (S_IFREG) You lose. # endif #endif #if defined(S_ISSOCK) && defined(S_IFREG) # if S_ISSOCK (S_IFREG) You lose. # endif #endif Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/types.h" 1 3 4 # 26 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 5 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/stat.h" 1 3 4 # 39 "/usr/include/sys/stat.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 40 "/usr/include/sys/stat.h" 2 3 4 # 105 "/usr/include/sys/stat.h" 3 4 # 1 "/usr/include/bits/stat.h" 1 3 4 # 46 "/usr/include/bits/stat.h" 3 4 struct stat { __dev_t st_dev; __ino_t st_ino; __nlink_t st_nlink; __mode_t st_mode; __uid_t st_uid; __gid_t st_gid; int __pad0; __dev_t st_rdev; __off_t st_size; __blksize_t st_blksize; __blkcnt_t st_blocks; # 91 "/usr/include/bits/stat.h" 3 4 struct timespec st_atim; struct timespec st_mtim; struct timespec st_ctim; # 106 "/usr/include/bits/stat.h" 3 4 long int __unused[3]; # 115 "/usr/include/bits/stat.h" 3 4 }; # 108 "/usr/include/sys/stat.h" 2 3 4 # 211 "/usr/include/sys/stat.h" 3 4 extern int stat (__const char *__restrict __file, struct stat *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int fstat (int __fd, struct stat *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 240 "/usr/include/sys/stat.h" 3 4 extern int fstatat (int __fd, __const char *__restrict __file, struct stat *__restrict __buf, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); # 265 "/usr/include/sys/stat.h" 3 4 extern int lstat (__const char *__restrict __file, struct stat *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); # 286 "/usr/include/sys/stat.h" 3 4 extern int chmod (__const char *__file, __mode_t __mode) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int lchmod (__const char *__file, __mode_t __mode) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int fchmod (int __fd, __mode_t __mode) __attribute__ ((__nothrow__)); extern int fchmodat (int __fd, __const char *__file, __mode_t __mode, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; extern __mode_t umask (__mode_t __mask) __attribute__ ((__nothrow__)); # 323 "/usr/include/sys/stat.h" 3 4 extern int mkdir (__const char *__path, __mode_t __mode) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int mkdirat (int __fd, __const char *__path, __mode_t __mode) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int mknod (__const char *__path, __mode_t __mode, __dev_t __dev) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int mknodat (int __fd, __const char *__path, __mode_t __mode, __dev_t __dev) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int mkfifo (__const char *__path, __mode_t __mode) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int mkfifoat (int __fd, __const char *__path, __mode_t __mode) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int utimensat (int __fd, __const char *__path, __const struct timespec __times[2], int __flags) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int futimens (int __fd, __const struct timespec __times[2]) __attribute__ ((__nothrow__)); # 401 "/usr/include/sys/stat.h" 3 4 extern int __fxstat (int __ver, int __fildes, struct stat *__stat_buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))); extern int __xstat (int __ver, __const char *__filename, struct stat *__stat_buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern int __lxstat (int __ver, __const char *__filename, struct stat *__stat_buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern int __fxstatat (int __ver, int __fildes, __const char *__filename, struct stat *__stat_buf, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))); # 444 "/usr/include/sys/stat.h" 3 4 extern int __xmknod (int __ver, __const char *__path, __mode_t __mode, __dev_t *__dev) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern int __xmknodat (int __ver, int __fd, __const char *__path, __mode_t __mode, __dev_t *__dev) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 5))); # 536 "/usr/include/sys/stat.h" 3 4 # 6 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 ================================================================================ TEST checkSysWait from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:173) TESTING: checkSysWait from config.headers(config/BuildSystem/config/headers.py:173) Check for POSIX.1 compatible sys/wait.h, and defines HAVE_SYS_WAIT_H if found Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.headers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #ifndef WEXITSTATUS #define WEXITSTATUS(stat_val) ((unsigned)(stat_val) >> 8) #endif #ifndef WIFEXITED #define WIFEXITED(stat_val) (((stat_val) & 255) == 0) #endif int main() { int s; wait (&s); s = WIFEXITED (s) ? WEXITSTATUS (s) : 1; ; return 0; } Defined "HAVE_SYS_WAIT_H" to "1" ================================================================================ TEST checkTime from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:195) TESTING: checkTime from config.headers(config/BuildSystem/config/headers.py:195) Checks if you can safely include both and , and if so defines TIME_WITH_SYS_TIME Checking for header: time.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/time.h" 1 3 4 # 28 "/usr/include/time.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 29 "/usr/include/time.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 39 "/usr/include/time.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 43 "/usr/include/time.h" 2 3 4 # 56 "/usr/include/time.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 57 "/usr/include/time.h" 2 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; struct tm { int tm_sec; int tm_min; int tm_hour; int tm_mday; int tm_mon; int tm_year; int tm_wday; int tm_yday; int tm_isdst; long int tm_gmtoff; __const char *tm_zone; }; struct itimerspec { struct timespec it_interval; struct timespec it_value; }; struct sigevent; typedef __pid_t pid_t; extern clock_t clock (void) __attribute__ ((__nothrow__)); extern time_t time (time_t *__timer) __attribute__ ((__nothrow__)); extern double difftime (time_t __time1, time_t __time0) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern time_t mktime (struct tm *__tp) __attribute__ ((__nothrow__)); extern size_t strftime (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp) __attribute__ ((__nothrow__)); # 215 "/usr/include/time.h" 3 4 # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 216 "/usr/include/time.h" 2 3 4 extern size_t strftime_l (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp, __locale_t __loc) __attribute__ ((__nothrow__)); # 230 "/usr/include/time.h" 3 4 extern struct tm *gmtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *localtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *gmtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern struct tm *localtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern char *asctime (__const struct tm *__tp) __attribute__ ((__nothrow__)); extern char *ctime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern char *asctime_r (__const struct tm *__restrict __tp, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *ctime_r (__const time_t *__restrict __timer, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *__tzname[2]; extern int __daylight; extern long int __timezone; extern char *tzname[2]; extern void tzset (void) __attribute__ ((__nothrow__)); extern int daylight; extern long int timezone; extern int stime (__const time_t *__when) __attribute__ ((__nothrow__)); # 313 "/usr/include/time.h" 3 4 extern time_t timegm (struct tm *__tp) __attribute__ ((__nothrow__)); extern time_t timelocal (struct tm *__tp) __attribute__ ((__nothrow__)); extern int dysize (int __year) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 328 "/usr/include/time.h" 3 4 extern int nanosleep (__const struct timespec *__requested_time, struct timespec *__remaining); extern int clock_getres (clockid_t __clock_id, struct timespec *__res) __attribute__ ((__nothrow__)); extern int clock_gettime (clockid_t __clock_id, struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_settime (clockid_t __clock_id, __const struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_nanosleep (clockid_t __clock_id, int __flags, __const struct timespec *__req, struct timespec *__rem); extern int clock_getcpuclockid (pid_t __pid, clockid_t *__clock_id) __attribute__ ((__nothrow__)); extern int timer_create (clockid_t __clock_id, struct sigevent *__restrict __evp, timer_t *__restrict __timerid) __attribute__ ((__nothrow__)); extern int timer_delete (timer_t __timerid) __attribute__ ((__nothrow__)); extern int timer_settime (timer_t __timerid, int __flags, __const struct itimerspec *__restrict __value, struct itimerspec *__restrict __ovalue) __attribute__ ((__nothrow__)); extern int timer_gettime (timer_t __timerid, struct itimerspec *__value) __attribute__ ((__nothrow__)); extern int timer_getoverrun (timer_t __timerid) __attribute__ ((__nothrow__)); # 417 "/usr/include/time.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" Checking for header: sys/time.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/time.h" 1 3 4 # 23 "/usr/include/sys/time.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 26 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 28 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 30 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 32 "/usr/include/sys/time.h" 2 3 4 # 57 "/usr/include/sys/time.h" 3 4 struct timezone { int tz_minuteswest; int tz_dsttime; }; typedef struct timezone *__restrict __timezone_ptr_t; # 73 "/usr/include/sys/time.h" 3 4 extern int gettimeofday (struct timeval *__restrict __tv, __timezone_ptr_t __tz) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int settimeofday (__const struct timeval *__tv, __const struct timezone *__tz) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int adjtime (__const struct timeval *__delta, struct timeval *__olddelta) __attribute__ ((__nothrow__)); enum __itimer_which { ITIMER_REAL = 0, ITIMER_VIRTUAL = 1, ITIMER_PROF = 2 }; struct itimerval { struct timeval it_interval; struct timeval it_value; }; typedef int __itimer_which_t; extern int getitimer (__itimer_which_t __which, struct itimerval *__value) __attribute__ ((__nothrow__)); extern int setitimer (__itimer_which_t __which, __const struct itimerval *__restrict __new, struct itimerval *__restrict __old) __attribute__ ((__nothrow__)); extern int utimes (__const char *__file, __const struct timeval __tvp[2]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int lutimes (__const char *__file, __const struct timeval __tvp[2]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int futimes (int __fd, __const struct timeval __tvp[2]) __attribute__ ((__nothrow__)); # 191 "/usr/include/sys/time.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIME_H" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.headers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { struct tm *tp = 0; if (tp); ; return 0; } Defined "TIME_WITH_SYS_TIME" to "1" ================================================================================ TEST checkMath from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:203) TESTING: checkMath from config.headers(config/BuildSystem/config/headers.py:203) Checks for the math headers and defines Checking for header: math.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/math.h" 1 3 4 # 28 "/usr/include/math.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 29 "/usr/include/math.h" 2 3 4 # 1 "/usr/include/bits/huge_val.h" 1 3 4 # 35 "/usr/include/math.h" 2 3 4 # 1 "/usr/include/bits/huge_valf.h" 1 3 4 # 37 "/usr/include/math.h" 2 3 4 # 1 "/usr/include/bits/huge_vall.h" 1 3 4 # 38 "/usr/include/math.h" 2 3 4 # 1 "/usr/include/bits/inf.h" 1 3 4 # 41 "/usr/include/math.h" 2 3 4 # 1 "/usr/include/bits/nan.h" 1 3 4 # 44 "/usr/include/math.h" 2 3 4 # 1 "/usr/include/bits/mathdef.h" 1 3 4 # 26 "/usr/include/bits/mathdef.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 27 "/usr/include/bits/mathdef.h" 2 3 4 typedef float float_t; typedef double double_t; # 48 "/usr/include/math.h" 2 3 4 # 71 "/usr/include/math.h" 3 4 # 1 "/usr/include/bits/mathcalls.h" 1 3 4 # 53 "/usr/include/bits/mathcalls.h" 3 4 extern double acos (double __x) __attribute__ ((__nothrow__)); extern double __acos (double __x) __attribute__ ((__nothrow__)); extern double asin (double __x) __attribute__ ((__nothrow__)); extern double __asin (double __x) __attribute__ ((__nothrow__)); extern double atan (double __x) __attribute__ ((__nothrow__)); extern double __atan (double __x) __attribute__ ((__nothrow__)); extern double atan2 (double __y, double __x) __attribute__ ((__nothrow__)); extern double __atan2 (double __y, double __x) __attribute__ ((__nothrow__)); extern double cos (double __x) __attribute__ ((__nothrow__)); extern double __cos (double __x) __attribute__ ((__nothrow__)); extern double sin (double __x) __attribute__ ((__nothrow__)); extern double __sin (double __x) __attribute__ ((__nothrow__)); extern double tan (double __x) __attribute__ ((__nothrow__)); extern double __tan (double __x) __attribute__ ((__nothrow__)); extern double cosh (double __x) __attribute__ ((__nothrow__)); extern double __cosh (double __x) __attribute__ ((__nothrow__)); extern double sinh (double __x) __attribute__ ((__nothrow__)); extern double __sinh (double __x) __attribute__ ((__nothrow__)); extern double tanh (double __x) __attribute__ ((__nothrow__)); extern double __tanh (double __x) __attribute__ ((__nothrow__)); # 87 "/usr/include/bits/mathcalls.h" 3 4 extern double acosh (double __x) __attribute__ ((__nothrow__)); extern double __acosh (double __x) __attribute__ ((__nothrow__)); extern double asinh (double __x) __attribute__ ((__nothrow__)); extern double __asinh (double __x) __attribute__ ((__nothrow__)); extern double atanh (double __x) __attribute__ ((__nothrow__)); extern double __atanh (double __x) __attribute__ ((__nothrow__)); extern double exp (double __x) __attribute__ ((__nothrow__)); extern double __exp (double __x) __attribute__ ((__nothrow__)); extern double frexp (double __x, int *__exponent) __attribute__ ((__nothrow__)); extern double __frexp (double __x, int *__exponent) __attribute__ ((__nothrow__)); extern double ldexp (double __x, int __exponent) __attribute__ ((__nothrow__)); extern double __ldexp (double __x, int __exponent) __attribute__ ((__nothrow__)); extern double log (double __x) __attribute__ ((__nothrow__)); extern double __log (double __x) __attribute__ ((__nothrow__)); extern double log10 (double __x) __attribute__ ((__nothrow__)); extern double __log10 (double __x) __attribute__ ((__nothrow__)); extern double modf (double __x, double *__iptr) __attribute__ ((__nothrow__)); extern double __modf (double __x, double *__iptr) __attribute__ ((__nothrow__)); # 127 "/usr/include/bits/mathcalls.h" 3 4 extern double expm1 (double __x) __attribute__ ((__nothrow__)); extern double __expm1 (double __x) __attribute__ ((__nothrow__)); extern double log1p (double __x) __attribute__ ((__nothrow__)); extern double __log1p (double __x) __attribute__ ((__nothrow__)); extern double logb (double __x) __attribute__ ((__nothrow__)); extern double __logb (double __x) __attribute__ ((__nothrow__)); extern double exp2 (double __x) __attribute__ ((__nothrow__)); extern double __exp2 (double __x) __attribute__ ((__nothrow__)); extern double log2 (double __x) __attribute__ ((__nothrow__)); extern double __log2 (double __x) __attribute__ ((__nothrow__)); extern double pow (double __x, double __y) __attribute__ ((__nothrow__)); extern double __pow (double __x, double __y) __attribute__ ((__nothrow__)); extern double sqrt (double __x) __attribute__ ((__nothrow__)); extern double __sqrt (double __x) __attribute__ ((__nothrow__)); extern double hypot (double __x, double __y) __attribute__ ((__nothrow__)); extern double __hypot (double __x, double __y) __attribute__ ((__nothrow__)); extern double cbrt (double __x) __attribute__ ((__nothrow__)); extern double __cbrt (double __x) __attribute__ ((__nothrow__)); extern double ceil (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __ceil (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double fabs (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __fabs (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double floor (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __floor (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double fmod (double __x, double __y) __attribute__ ((__nothrow__)); extern double __fmod (double __x, double __y) __attribute__ ((__nothrow__)); extern int __isinf (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __finite (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int isinf (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int finite (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double drem (double __x, double __y) __attribute__ ((__nothrow__)); extern double __drem (double __x, double __y) __attribute__ ((__nothrow__)); extern double significand (double __x) __attribute__ ((__nothrow__)); extern double __significand (double __x) __attribute__ ((__nothrow__)); extern double copysign (double __x, double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __copysign (double __x, double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double nan (__const char *__tagb) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __nan (__const char *__tagb) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __isnan (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int isnan (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double j0 (double) __attribute__ ((__nothrow__)); extern double __j0 (double) __attribute__ ((__nothrow__)); extern double j1 (double) __attribute__ ((__nothrow__)); extern double __j1 (double) __attribute__ ((__nothrow__)); extern double jn (int, double) __attribute__ ((__nothrow__)); extern double __jn (int, double) __attribute__ ((__nothrow__)); extern double y0 (double) __attribute__ ((__nothrow__)); extern double __y0 (double) __attribute__ ((__nothrow__)); extern double y1 (double) __attribute__ ((__nothrow__)); extern double __y1 (double) __attribute__ ((__nothrow__)); extern double yn (int, double) __attribute__ ((__nothrow__)); extern double __yn (int, double) __attribute__ ((__nothrow__)); extern double erf (double) __attribute__ ((__nothrow__)); extern double __erf (double) __attribute__ ((__nothrow__)); extern double erfc (double) __attribute__ ((__nothrow__)); extern double __erfc (double) __attribute__ ((__nothrow__)); extern double lgamma (double) __attribute__ ((__nothrow__)); extern double __lgamma (double) __attribute__ ((__nothrow__)); extern double tgamma (double) __attribute__ ((__nothrow__)); extern double __tgamma (double) __attribute__ ((__nothrow__)); extern double gamma (double) __attribute__ ((__nothrow__)); extern double __gamma (double) __attribute__ ((__nothrow__)); extern double lgamma_r (double, int *__signgamp) __attribute__ ((__nothrow__)); extern double __lgamma_r (double, int *__signgamp) __attribute__ ((__nothrow__)); extern double rint (double __x) __attribute__ ((__nothrow__)); extern double __rint (double __x) __attribute__ ((__nothrow__)); extern double nextafter (double __x, double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __nextafter (double __x, double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double nexttoward (double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __nexttoward (double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double remainder (double __x, double __y) __attribute__ ((__nothrow__)); extern double __remainder (double __x, double __y) __attribute__ ((__nothrow__)); extern double scalbn (double __x, int __n) __attribute__ ((__nothrow__)); extern double __scalbn (double __x, int __n) __attribute__ ((__nothrow__)); extern int ilogb (double __x) __attribute__ ((__nothrow__)); extern int __ilogb (double __x) __attribute__ ((__nothrow__)); extern double scalbln (double __x, long int __n) __attribute__ ((__nothrow__)); extern double __scalbln (double __x, long int __n) __attribute__ ((__nothrow__)); extern double nearbyint (double __x) __attribute__ ((__nothrow__)); extern double __nearbyint (double __x) __attribute__ ((__nothrow__)); extern double round (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __round (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double trunc (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double __trunc (double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double remquo (double __x, double __y, int *__quo) __attribute__ ((__nothrow__)); extern double __remquo (double __x, double __y, int *__quo) __attribute__ ((__nothrow__)); extern long int lrint (double __x) __attribute__ ((__nothrow__)); extern long int __lrint (double __x) __attribute__ ((__nothrow__)); extern long long int llrint (double __x) __attribute__ ((__nothrow__)); extern long long int __llrint (double __x) __attribute__ ((__nothrow__)); extern long int lround (double __x) __attribute__ ((__nothrow__)); extern long int __lround (double __x) __attribute__ ((__nothrow__)); extern long long int llround (double __x) __attribute__ ((__nothrow__)); extern long long int __llround (double __x) __attribute__ ((__nothrow__)); extern double fdim (double __x, double __y) __attribute__ ((__nothrow__)); extern double __fdim (double __x, double __y) __attribute__ ((__nothrow__)); extern double fmax (double __x, double __y) __attribute__ ((__nothrow__)); extern double __fmax (double __x, double __y) __attribute__ ((__nothrow__)); extern double fmin (double __x, double __y) __attribute__ ((__nothrow__)); extern double __fmin (double __x, double __y) __attribute__ ((__nothrow__)); extern int __fpclassify (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __signbit (double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern double fma (double __x, double __y, double __z) __attribute__ ((__nothrow__)); extern double __fma (double __x, double __y, double __z) __attribute__ ((__nothrow__)); extern double scalb (double __x, double __n) __attribute__ ((__nothrow__)); extern double __scalb (double __x, double __n) __attribute__ ((__nothrow__)); # 72 "/usr/include/math.h" 2 3 4 # 94 "/usr/include/math.h" 3 4 # 1 "/usr/include/bits/mathcalls.h" 1 3 4 # 53 "/usr/include/bits/mathcalls.h" 3 4 extern float acosf (float __x) __attribute__ ((__nothrow__)); extern float __acosf (float __x) __attribute__ ((__nothrow__)); extern float asinf (float __x) __attribute__ ((__nothrow__)); extern float __asinf (float __x) __attribute__ ((__nothrow__)); extern float atanf (float __x) __attribute__ ((__nothrow__)); extern float __atanf (float __x) __attribute__ ((__nothrow__)); extern float atan2f (float __y, float __x) __attribute__ ((__nothrow__)); extern float __atan2f (float __y, float __x) __attribute__ ((__nothrow__)); extern float cosf (float __x) __attribute__ ((__nothrow__)); extern float __cosf (float __x) __attribute__ ((__nothrow__)); extern float sinf (float __x) __attribute__ ((__nothrow__)); extern float __sinf (float __x) __attribute__ ((__nothrow__)); extern float tanf (float __x) __attribute__ ((__nothrow__)); extern float __tanf (float __x) __attribute__ ((__nothrow__)); extern float coshf (float __x) __attribute__ ((__nothrow__)); extern float __coshf (float __x) __attribute__ ((__nothrow__)); extern float sinhf (float __x) __attribute__ ((__nothrow__)); extern float __sinhf (float __x) __attribute__ ((__nothrow__)); extern float tanhf (float __x) __attribute__ ((__nothrow__)); extern float __tanhf (float __x) __attribute__ ((__nothrow__)); # 87 "/usr/include/bits/mathcalls.h" 3 4 extern float acoshf (float __x) __attribute__ ((__nothrow__)); extern float __acoshf (float __x) __attribute__ ((__nothrow__)); extern float asinhf (float __x) __attribute__ ((__nothrow__)); extern float __asinhf (float __x) __attribute__ ((__nothrow__)); extern float atanhf (float __x) __attribute__ ((__nothrow__)); extern float __atanhf (float __x) __attribute__ ((__nothrow__)); extern float expf (float __x) __attribute__ ((__nothrow__)); extern float __expf (float __x) __attribute__ ((__nothrow__)); extern float frexpf (float __x, int *__exponent) __attribute__ ((__nothrow__)); extern float __frexpf (float __x, int *__exponent) __attribute__ ((__nothrow__)); extern float ldexpf (float __x, int __exponent) __attribute__ ((__nothrow__)); extern float __ldexpf (float __x, int __exponent) __attribute__ ((__nothrow__)); extern float logf (float __x) __attribute__ ((__nothrow__)); extern float __logf (float __x) __attribute__ ((__nothrow__)); extern float log10f (float __x) __attribute__ ((__nothrow__)); extern float __log10f (float __x) __attribute__ ((__nothrow__)); extern float modff (float __x, float *__iptr) __attribute__ ((__nothrow__)); extern float __modff (float __x, float *__iptr) __attribute__ ((__nothrow__)); # 127 "/usr/include/bits/mathcalls.h" 3 4 extern float expm1f (float __x) __attribute__ ((__nothrow__)); extern float __expm1f (float __x) __attribute__ ((__nothrow__)); extern float log1pf (float __x) __attribute__ ((__nothrow__)); extern float __log1pf (float __x) __attribute__ ((__nothrow__)); extern float logbf (float __x) __attribute__ ((__nothrow__)); extern float __logbf (float __x) __attribute__ ((__nothrow__)); extern float exp2f (float __x) __attribute__ ((__nothrow__)); extern float __exp2f (float __x) __attribute__ ((__nothrow__)); extern float log2f (float __x) __attribute__ ((__nothrow__)); extern float __log2f (float __x) __attribute__ ((__nothrow__)); extern float powf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __powf (float __x, float __y) __attribute__ ((__nothrow__)); extern float sqrtf (float __x) __attribute__ ((__nothrow__)); extern float __sqrtf (float __x) __attribute__ ((__nothrow__)); extern float hypotf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __hypotf (float __x, float __y) __attribute__ ((__nothrow__)); extern float cbrtf (float __x) __attribute__ ((__nothrow__)); extern float __cbrtf (float __x) __attribute__ ((__nothrow__)); extern float ceilf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __ceilf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float fabsf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __fabsf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float floorf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __floorf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float fmodf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __fmodf (float __x, float __y) __attribute__ ((__nothrow__)); extern int __isinff (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __finitef (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int isinff (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int finitef (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float dremf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __dremf (float __x, float __y) __attribute__ ((__nothrow__)); extern float significandf (float __x) __attribute__ ((__nothrow__)); extern float __significandf (float __x) __attribute__ ((__nothrow__)); extern float copysignf (float __x, float __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __copysignf (float __x, float __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float nanf (__const char *__tagb) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __nanf (__const char *__tagb) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __isnanf (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int isnanf (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float j0f (float) __attribute__ ((__nothrow__)); extern float __j0f (float) __attribute__ ((__nothrow__)); extern float j1f (float) __attribute__ ((__nothrow__)); extern float __j1f (float) __attribute__ ((__nothrow__)); extern float jnf (int, float) __attribute__ ((__nothrow__)); extern float __jnf (int, float) __attribute__ ((__nothrow__)); extern float y0f (float) __attribute__ ((__nothrow__)); extern float __y0f (float) __attribute__ ((__nothrow__)); extern float y1f (float) __attribute__ ((__nothrow__)); extern float __y1f (float) __attribute__ ((__nothrow__)); extern float ynf (int, float) __attribute__ ((__nothrow__)); extern float __ynf (int, float) __attribute__ ((__nothrow__)); extern float erff (float) __attribute__ ((__nothrow__)); extern float __erff (float) __attribute__ ((__nothrow__)); extern float erfcf (float) __attribute__ ((__nothrow__)); extern float __erfcf (float) __attribute__ ((__nothrow__)); extern float lgammaf (float) __attribute__ ((__nothrow__)); extern float __lgammaf (float) __attribute__ ((__nothrow__)); extern float tgammaf (float) __attribute__ ((__nothrow__)); extern float __tgammaf (float) __attribute__ ((__nothrow__)); extern float gammaf (float) __attribute__ ((__nothrow__)); extern float __gammaf (float) __attribute__ ((__nothrow__)); extern float lgammaf_r (float, int *__signgamp) __attribute__ ((__nothrow__)); extern float __lgammaf_r (float, int *__signgamp) __attribute__ ((__nothrow__)); extern float rintf (float __x) __attribute__ ((__nothrow__)); extern float __rintf (float __x) __attribute__ ((__nothrow__)); extern float nextafterf (float __x, float __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __nextafterf (float __x, float __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float nexttowardf (float __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __nexttowardf (float __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float remainderf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __remainderf (float __x, float __y) __attribute__ ((__nothrow__)); extern float scalbnf (float __x, int __n) __attribute__ ((__nothrow__)); extern float __scalbnf (float __x, int __n) __attribute__ ((__nothrow__)); extern int ilogbf (float __x) __attribute__ ((__nothrow__)); extern int __ilogbf (float __x) __attribute__ ((__nothrow__)); extern float scalblnf (float __x, long int __n) __attribute__ ((__nothrow__)); extern float __scalblnf (float __x, long int __n) __attribute__ ((__nothrow__)); extern float nearbyintf (float __x) __attribute__ ((__nothrow__)); extern float __nearbyintf (float __x) __attribute__ ((__nothrow__)); extern float roundf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __roundf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float truncf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float __truncf (float __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float remquof (float __x, float __y, int *__quo) __attribute__ ((__nothrow__)); extern float __remquof (float __x, float __y, int *__quo) __attribute__ ((__nothrow__)); extern long int lrintf (float __x) __attribute__ ((__nothrow__)); extern long int __lrintf (float __x) __attribute__ ((__nothrow__)); extern long long int llrintf (float __x) __attribute__ ((__nothrow__)); extern long long int __llrintf (float __x) __attribute__ ((__nothrow__)); extern long int lroundf (float __x) __attribute__ ((__nothrow__)); extern long int __lroundf (float __x) __attribute__ ((__nothrow__)); extern long long int llroundf (float __x) __attribute__ ((__nothrow__)); extern long long int __llroundf (float __x) __attribute__ ((__nothrow__)); extern float fdimf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __fdimf (float __x, float __y) __attribute__ ((__nothrow__)); extern float fmaxf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __fmaxf (float __x, float __y) __attribute__ ((__nothrow__)); extern float fminf (float __x, float __y) __attribute__ ((__nothrow__)); extern float __fminf (float __x, float __y) __attribute__ ((__nothrow__)); extern int __fpclassifyf (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __signbitf (float __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern float fmaf (float __x, float __y, float __z) __attribute__ ((__nothrow__)); extern float __fmaf (float __x, float __y, float __z) __attribute__ ((__nothrow__)); extern float scalbf (float __x, float __n) __attribute__ ((__nothrow__)); extern float __scalbf (float __x, float __n) __attribute__ ((__nothrow__)); # 95 "/usr/include/math.h" 2 3 4 # 141 "/usr/include/math.h" 3 4 # 1 "/usr/include/bits/mathcalls.h" 1 3 4 # 53 "/usr/include/bits/mathcalls.h" 3 4 extern long double acosl (long double __x) __attribute__ ((__nothrow__)); extern long double __acosl (long double __x) __attribute__ ((__nothrow__)); extern long double asinl (long double __x) __attribute__ ((__nothrow__)); extern long double __asinl (long double __x) __attribute__ ((__nothrow__)); extern long double atanl (long double __x) __attribute__ ((__nothrow__)); extern long double __atanl (long double __x) __attribute__ ((__nothrow__)); extern long double atan2l (long double __y, long double __x) __attribute__ ((__nothrow__)); extern long double __atan2l (long double __y, long double __x) __attribute__ ((__nothrow__)); extern long double cosl (long double __x) __attribute__ ((__nothrow__)); extern long double __cosl (long double __x) __attribute__ ((__nothrow__)); extern long double sinl (long double __x) __attribute__ ((__nothrow__)); extern long double __sinl (long double __x) __attribute__ ((__nothrow__)); extern long double tanl (long double __x) __attribute__ ((__nothrow__)); extern long double __tanl (long double __x) __attribute__ ((__nothrow__)); extern long double coshl (long double __x) __attribute__ ((__nothrow__)); extern long double __coshl (long double __x) __attribute__ ((__nothrow__)); extern long double sinhl (long double __x) __attribute__ ((__nothrow__)); extern long double __sinhl (long double __x) __attribute__ ((__nothrow__)); extern long double tanhl (long double __x) __attribute__ ((__nothrow__)); extern long double __tanhl (long double __x) __attribute__ ((__nothrow__)); # 87 "/usr/include/bits/mathcalls.h" 3 4 extern long double acoshl (long double __x) __attribute__ ((__nothrow__)); extern long double __acoshl (long double __x) __attribute__ ((__nothrow__)); extern long double asinhl (long double __x) __attribute__ ((__nothrow__)); extern long double __asinhl (long double __x) __attribute__ ((__nothrow__)); extern long double atanhl (long double __x) __attribute__ ((__nothrow__)); extern long double __atanhl (long double __x) __attribute__ ((__nothrow__)); extern long double expl (long double __x) __attribute__ ((__nothrow__)); extern long double __expl (long double __x) __attribute__ ((__nothrow__)); extern long double frexpl (long double __x, int *__exponent) __attribute__ ((__nothrow__)); extern long double __frexpl (long double __x, int *__exponent) __attribute__ ((__nothrow__)); extern long double ldexpl (long double __x, int __exponent) __attribute__ ((__nothrow__)); extern long double __ldexpl (long double __x, int __exponent) __attribute__ ((__nothrow__)); extern long double logl (long double __x) __attribute__ ((__nothrow__)); extern long double __logl (long double __x) __attribute__ ((__nothrow__)); extern long double log10l (long double __x) __attribute__ ((__nothrow__)); extern long double __log10l (long double __x) __attribute__ ((__nothrow__)); extern long double modfl (long double __x, long double *__iptr) __attribute__ ((__nothrow__)); extern long double __modfl (long double __x, long double *__iptr) __attribute__ ((__nothrow__)); # 127 "/usr/include/bits/mathcalls.h" 3 4 extern long double expm1l (long double __x) __attribute__ ((__nothrow__)); extern long double __expm1l (long double __x) __attribute__ ((__nothrow__)); extern long double log1pl (long double __x) __attribute__ ((__nothrow__)); extern long double __log1pl (long double __x) __attribute__ ((__nothrow__)); extern long double logbl (long double __x) __attribute__ ((__nothrow__)); extern long double __logbl (long double __x) __attribute__ ((__nothrow__)); extern long double exp2l (long double __x) __attribute__ ((__nothrow__)); extern long double __exp2l (long double __x) __attribute__ ((__nothrow__)); extern long double log2l (long double __x) __attribute__ ((__nothrow__)); extern long double __log2l (long double __x) __attribute__ ((__nothrow__)); extern long double powl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __powl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double sqrtl (long double __x) __attribute__ ((__nothrow__)); extern long double __sqrtl (long double __x) __attribute__ ((__nothrow__)); extern long double hypotl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __hypotl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double cbrtl (long double __x) __attribute__ ((__nothrow__)); extern long double __cbrtl (long double __x) __attribute__ ((__nothrow__)); extern long double ceill (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __ceill (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double fabsl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __fabsl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double floorl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __floorl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double fmodl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __fmodl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern int __isinfl (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __finitel (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int isinfl (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int finitel (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double dreml (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __dreml (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double significandl (long double __x) __attribute__ ((__nothrow__)); extern long double __significandl (long double __x) __attribute__ ((__nothrow__)); extern long double copysignl (long double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __copysignl (long double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double nanl (__const char *__tagb) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __nanl (__const char *__tagb) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __isnanl (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int isnanl (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double j0l (long double) __attribute__ ((__nothrow__)); extern long double __j0l (long double) __attribute__ ((__nothrow__)); extern long double j1l (long double) __attribute__ ((__nothrow__)); extern long double __j1l (long double) __attribute__ ((__nothrow__)); extern long double jnl (int, long double) __attribute__ ((__nothrow__)); extern long double __jnl (int, long double) __attribute__ ((__nothrow__)); extern long double y0l (long double) __attribute__ ((__nothrow__)); extern long double __y0l (long double) __attribute__ ((__nothrow__)); extern long double y1l (long double) __attribute__ ((__nothrow__)); extern long double __y1l (long double) __attribute__ ((__nothrow__)); extern long double ynl (int, long double) __attribute__ ((__nothrow__)); extern long double __ynl (int, long double) __attribute__ ((__nothrow__)); extern long double erfl (long double) __attribute__ ((__nothrow__)); extern long double __erfl (long double) __attribute__ ((__nothrow__)); extern long double erfcl (long double) __attribute__ ((__nothrow__)); extern long double __erfcl (long double) __attribute__ ((__nothrow__)); extern long double lgammal (long double) __attribute__ ((__nothrow__)); extern long double __lgammal (long double) __attribute__ ((__nothrow__)); extern long double tgammal (long double) __attribute__ ((__nothrow__)); extern long double __tgammal (long double) __attribute__ ((__nothrow__)); extern long double gammal (long double) __attribute__ ((__nothrow__)); extern long double __gammal (long double) __attribute__ ((__nothrow__)); extern long double lgammal_r (long double, int *__signgamp) __attribute__ ((__nothrow__)); extern long double __lgammal_r (long double, int *__signgamp) __attribute__ ((__nothrow__)); extern long double rintl (long double __x) __attribute__ ((__nothrow__)); extern long double __rintl (long double __x) __attribute__ ((__nothrow__)); extern long double nextafterl (long double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __nextafterl (long double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double nexttowardl (long double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __nexttowardl (long double __x, long double __y) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double remainderl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __remainderl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double scalbnl (long double __x, int __n) __attribute__ ((__nothrow__)); extern long double __scalbnl (long double __x, int __n) __attribute__ ((__nothrow__)); extern int ilogbl (long double __x) __attribute__ ((__nothrow__)); extern int __ilogbl (long double __x) __attribute__ ((__nothrow__)); extern long double scalblnl (long double __x, long int __n) __attribute__ ((__nothrow__)); extern long double __scalblnl (long double __x, long int __n) __attribute__ ((__nothrow__)); extern long double nearbyintl (long double __x) __attribute__ ((__nothrow__)); extern long double __nearbyintl (long double __x) __attribute__ ((__nothrow__)); extern long double roundl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __roundl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double truncl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double __truncl (long double __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double remquol (long double __x, long double __y, int *__quo) __attribute__ ((__nothrow__)); extern long double __remquol (long double __x, long double __y, int *__quo) __attribute__ ((__nothrow__)); extern long int lrintl (long double __x) __attribute__ ((__nothrow__)); extern long int __lrintl (long double __x) __attribute__ ((__nothrow__)); extern long long int llrintl (long double __x) __attribute__ ((__nothrow__)); extern long long int __llrintl (long double __x) __attribute__ ((__nothrow__)); extern long int lroundl (long double __x) __attribute__ ((__nothrow__)); extern long int __lroundl (long double __x) __attribute__ ((__nothrow__)); extern long long int llroundl (long double __x) __attribute__ ((__nothrow__)); extern long long int __llroundl (long double __x) __attribute__ ((__nothrow__)); extern long double fdiml (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __fdiml (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double fmaxl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __fmaxl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double fminl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern long double __fminl (long double __x, long double __y) __attribute__ ((__nothrow__)); extern int __fpclassifyl (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int __signbitl (long double __value) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern long double fmal (long double __x, long double __y, long double __z) __attribute__ ((__nothrow__)); extern long double __fmal (long double __x, long double __y, long double __z) __attribute__ ((__nothrow__)); extern long double scalbl (long double __x, long double __n) __attribute__ ((__nothrow__)); extern long double __scalbl (long double __x, long double __n) __attribute__ ((__nothrow__)); # 142 "/usr/include/math.h" 2 3 4 # 157 "/usr/include/math.h" 3 4 extern int signgam; # 198 "/usr/include/math.h" 3 4 enum { FP_NAN, FP_INFINITE, FP_ZERO, FP_SUBNORMAL, FP_NORMAL }; # 291 "/usr/include/math.h" 3 4 typedef enum { _IEEE_ = -1, _SVID_, _XOPEN_, _POSIX_, _ISOC_ } _LIB_VERSION_TYPE; extern _LIB_VERSION_TYPE _LIB_VERSION; # 316 "/usr/include/math.h" 3 4 struct exception { int type; char *name; double arg1; double arg2; double retval; }; extern int matherr (struct exception *__exc); # 472 "/usr/include/math.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MATH_H" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.headers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double pi = M_PI; if (pi); ; return 0; } Found math #defines, like M_PI ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/socket.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/socket.h" 1 3 4 # 24 "/usr/include/sys/socket.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 25 "/usr/include/sys/socket.h" 2 3 4 # 1 "/usr/include/sys/uio.h" 1 3 4 # 24 "/usr/include/sys/uio.h" 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 25 "/usr/include/sys/uio.h" 2 3 4 # 1 "/usr/include/bits/uio.h" 1 3 4 # 44 "/usr/include/bits/uio.h" 3 4 struct iovec { void *iov_base; size_t iov_len; }; # 30 "/usr/include/sys/uio.h" 2 3 4 # 40 "/usr/include/sys/uio.h" 3 4 extern ssize_t readv (int __fd, __const struct iovec *__iovec, int __count) ; # 51 "/usr/include/sys/uio.h" 3 4 extern ssize_t writev (int __fd, __const struct iovec *__iovec, int __count) ; # 66 "/usr/include/sys/uio.h" 3 4 extern ssize_t preadv (int __fd, __const struct iovec *__iovec, int __count, __off_t __offset) ; # 78 "/usr/include/sys/uio.h" 3 4 extern ssize_t pwritev (int __fd, __const struct iovec *__iovec, int __count, __off_t __offset) ; # 121 "/usr/include/sys/uio.h" 3 4 # 29 "/usr/include/sys/socket.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 31 "/usr/include/sys/socket.h" 2 3 4 # 40 "/usr/include/sys/socket.h" 3 4 # 1 "/usr/include/bits/socket.h" 1 3 4 # 29 "/usr/include/bits/socket.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 30 "/usr/include/bits/socket.h" 2 3 4 typedef __socklen_t socklen_t; enum __socket_type { SOCK_STREAM = 1, SOCK_DGRAM = 2, SOCK_RAW = 3, SOCK_RDM = 4, SOCK_SEQPACKET = 5, SOCK_DCCP = 6, SOCK_PACKET = 10, SOCK_CLOEXEC = 02000000, SOCK_NONBLOCK = 04000 }; # 171 "/usr/include/bits/socket.h" 3 4 # 1 "/usr/include/bits/sockaddr.h" 1 3 4 # 29 "/usr/include/bits/sockaddr.h" 3 4 typedef unsigned short int sa_family_t; # 172 "/usr/include/bits/socket.h" 2 3 4 struct sockaddr { sa_family_t sa_family; char sa_data[14]; }; # 187 "/usr/include/bits/socket.h" 3 4 struct sockaddr_storage { sa_family_t ss_family; unsigned long int __ss_align; char __ss_padding[(128 - (2 * sizeof (unsigned long int)))]; }; enum { MSG_OOB = 0x01, MSG_PEEK = 0x02, MSG_DONTROUTE = 0x04, MSG_CTRUNC = 0x08, MSG_PROXY = 0x10, MSG_TRUNC = 0x20, MSG_DONTWAIT = 0x40, MSG_EOR = 0x80, MSG_WAITALL = 0x100, MSG_FIN = 0x200, MSG_SYN = 0x400, MSG_CONFIRM = 0x800, MSG_RST = 0x1000, MSG_ERRQUEUE = 0x2000, MSG_NOSIGNAL = 0x4000, MSG_MORE = 0x8000, MSG_WAITFORONE = 0x10000, MSG_CMSG_CLOEXEC = 0x40000000 }; struct msghdr { void *msg_name; socklen_t msg_namelen; struct iovec *msg_iov; size_t msg_iovlen; void *msg_control; size_t msg_controllen; int msg_flags; }; # 274 "/usr/include/bits/socket.h" 3 4 struct cmsghdr { size_t cmsg_len; int cmsg_level; int cmsg_type; __extension__ unsigned char __cmsg_data []; }; # 304 "/usr/include/bits/socket.h" 3 4 extern struct cmsghdr *__cmsg_nxthdr (struct msghdr *__mhdr, struct cmsghdr *__cmsg) __attribute__ ((__nothrow__)); # 331 "/usr/include/bits/socket.h" 3 4 enum { SCM_RIGHTS = 0x01 }; # 377 "/usr/include/bits/socket.h" 3 4 # 1 "/usr/include/asm/socket.h" 1 3 4 # 1 "/usr/include/asm-generic/socket.h" 1 3 4 # 1 "/usr/include/asm/sockios.h" 1 3 4 # 1 "/usr/include/asm-generic/sockios.h" 1 3 4 # 1 "/usr/include/asm/sockios.h" 2 3 4 # 5 "/usr/include/asm-generic/socket.h" 2 3 4 # 1 "/usr/include/asm/socket.h" 2 3 4 # 378 "/usr/include/bits/socket.h" 2 3 4 # 411 "/usr/include/bits/socket.h" 3 4 struct linger { int l_onoff; int l_linger; }; extern int recvmmsg (int __fd, struct mmsghdr *__vmessages, unsigned int __vlen, int __flags, __const struct timespec *__tmo); # 41 "/usr/include/sys/socket.h" 2 3 4 struct osockaddr { unsigned short int sa_family; unsigned char sa_data[14]; }; enum { SHUT_RD = 0, SHUT_WR, SHUT_RDWR }; # 105 "/usr/include/sys/socket.h" 3 4 extern int socket (int __domain, int __type, int __protocol) __attribute__ ((__nothrow__)); extern int socketpair (int __domain, int __type, int __protocol, int __fds[2]) __attribute__ ((__nothrow__)); extern int bind (int __fd, __const struct sockaddr * __addr, socklen_t __len) __attribute__ ((__nothrow__)); extern int getsockname (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __len) __attribute__ ((__nothrow__)); # 129 "/usr/include/sys/socket.h" 3 4 extern int connect (int __fd, __const struct sockaddr * __addr, socklen_t __len); extern int getpeername (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __len) __attribute__ ((__nothrow__)); extern ssize_t send (int __fd, __const void *__buf, size_t __n, int __flags); extern ssize_t recv (int __fd, void *__buf, size_t __n, int __flags); extern ssize_t sendto (int __fd, __const void *__buf, size_t __n, int __flags, __const struct sockaddr * __addr, socklen_t __addr_len); # 166 "/usr/include/sys/socket.h" 3 4 extern ssize_t recvfrom (int __fd, void *__restrict __buf, size_t __n, int __flags, struct sockaddr *__restrict __addr, socklen_t *__restrict __addr_len); extern ssize_t sendmsg (int __fd, __const struct msghdr *__message, int __flags); extern ssize_t recvmsg (int __fd, struct msghdr *__message, int __flags); extern int getsockopt (int __fd, int __level, int __optname, void *__restrict __optval, socklen_t *__restrict __optlen) __attribute__ ((__nothrow__)); extern int setsockopt (int __fd, int __level, int __optname, __const void *__optval, socklen_t __optlen) __attribute__ ((__nothrow__)); extern int listen (int __fd, int __n) __attribute__ ((__nothrow__)); # 214 "/usr/include/sys/socket.h" 3 4 extern int accept (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __addr_len); # 232 "/usr/include/sys/socket.h" 3 4 extern int shutdown (int __fd, int __how) __attribute__ ((__nothrow__)); extern int sockatmark (int __fd) __attribute__ ((__nothrow__)); extern int isfdtype (int __fd, int __fdtype) __attribute__ ((__nothrow__)); # 254 "/usr/include/sys/socket.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SOCKET_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/types.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/types.h" 1 3 4 # 26 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TYPES_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: malloc.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/malloc.h" 1 3 4 # 24 "/usr/include/malloc.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 25 "/usr/include/malloc.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 26 "/usr/include/malloc.h" 2 3 4 # 1 "/usr/include/stdio.h" 1 3 4 # 30 "/usr/include/stdio.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 35 "/usr/include/stdio.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 37 "/usr/include/stdio.h" 2 3 4 # 45 "/usr/include/stdio.h" 3 4 struct _IO_FILE; typedef struct _IO_FILE FILE; # 65 "/usr/include/stdio.h" 3 4 typedef struct _IO_FILE __FILE; # 75 "/usr/include/stdio.h" 3 4 # 1 "/usr/include/libio.h" 1 3 4 # 32 "/usr/include/libio.h" 3 4 # 1 "/usr/include/_G_config.h" 1 3 4 # 15 "/usr/include/_G_config.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 16 "/usr/include/_G_config.h" 2 3 4 # 1 "/usr/include/wchar.h" 1 3 4 # 83 "/usr/include/wchar.h" 3 4 typedef struct { int __count; union { unsigned int __wch; char __wchb[4]; } __value; } __mbstate_t; # 21 "/usr/include/_G_config.h" 2 3 4 typedef struct { __off_t __pos; __mbstate_t __state; } _G_fpos_t; typedef struct { __off64_t __pos; __mbstate_t __state; } _G_fpos64_t; # 53 "/usr/include/_G_config.h" 3 4 typedef int _G_int16_t __attribute__ ((__mode__ (__HI__))); typedef int _G_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int _G_uint16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int _G_uint32_t __attribute__ ((__mode__ (__SI__))); # 33 "/usr/include/libio.h" 2 3 4 # 53 "/usr/include/libio.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 1 3 4 # 40 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 3 4 typedef __builtin_va_list __gnuc_va_list; # 54 "/usr/include/libio.h" 2 3 4 # 170 "/usr/include/libio.h" 3 4 struct _IO_jump_t; struct _IO_FILE; # 180 "/usr/include/libio.h" 3 4 typedef void _IO_lock_t; struct _IO_marker { struct _IO_marker *_next; struct _IO_FILE *_sbuf; int _pos; # 203 "/usr/include/libio.h" 3 4 }; enum __codecvt_result { __codecvt_ok, __codecvt_partial, __codecvt_error, __codecvt_noconv }; # 271 "/usr/include/libio.h" 3 4 struct _IO_FILE { int _flags; char* _IO_read_ptr; char* _IO_read_end; char* _IO_read_base; char* _IO_write_base; char* _IO_write_ptr; char* _IO_write_end; char* _IO_buf_base; char* _IO_buf_end; char *_IO_save_base; char *_IO_backup_base; char *_IO_save_end; struct _IO_marker *_markers; struct _IO_FILE *_chain; int _fileno; int _flags2; __off_t _old_offset; unsigned short _cur_column; signed char _vtable_offset; char _shortbuf[1]; _IO_lock_t *_lock; # 319 "/usr/include/libio.h" 3 4 __off64_t _offset; # 328 "/usr/include/libio.h" 3 4 void *__pad1; void *__pad2; void *__pad3; void *__pad4; size_t __pad5; int _mode; char _unused2[15 * sizeof (int) - 4 * sizeof (void *) - sizeof (size_t)]; }; typedef struct _IO_FILE _IO_FILE; struct _IO_FILE_plus; extern struct _IO_FILE_plus _IO_2_1_stdin_; extern struct _IO_FILE_plus _IO_2_1_stdout_; extern struct _IO_FILE_plus _IO_2_1_stderr_; # 364 "/usr/include/libio.h" 3 4 typedef __ssize_t __io_read_fn (void *__cookie, char *__buf, size_t __nbytes); typedef __ssize_t __io_write_fn (void *__cookie, __const char *__buf, size_t __n); typedef int __io_seek_fn (void *__cookie, __off64_t *__pos, int __w); typedef int __io_close_fn (void *__cookie); # 416 "/usr/include/libio.h" 3 4 extern int __underflow (_IO_FILE *); extern int __uflow (_IO_FILE *); extern int __overflow (_IO_FILE *, int); # 460 "/usr/include/libio.h" 3 4 extern int _IO_getc (_IO_FILE *__fp); extern int _IO_putc (int __c, _IO_FILE *__fp); extern int _IO_feof (_IO_FILE *__fp) __attribute__ ((__nothrow__)); extern int _IO_ferror (_IO_FILE *__fp) __attribute__ ((__nothrow__)); extern int _IO_peekc_locked (_IO_FILE *__fp); extern void _IO_flockfile (_IO_FILE *) __attribute__ ((__nothrow__)); extern void _IO_funlockfile (_IO_FILE *) __attribute__ ((__nothrow__)); extern int _IO_ftrylockfile (_IO_FILE *) __attribute__ ((__nothrow__)); # 490 "/usr/include/libio.h" 3 4 extern int _IO_vfscanf (_IO_FILE * __restrict, const char * __restrict, __gnuc_va_list, int *__restrict); extern int _IO_vfprintf (_IO_FILE *__restrict, const char *__restrict, __gnuc_va_list); extern __ssize_t _IO_padn (_IO_FILE *, int, __ssize_t); extern size_t _IO_sgetn (_IO_FILE *, void *, size_t); extern __off64_t _IO_seekoff (_IO_FILE *, __off64_t, int, int); extern __off64_t _IO_seekpos (_IO_FILE *, __off64_t, int); extern void _IO_free_backup_area (_IO_FILE *) __attribute__ ((__nothrow__)); # 76 "/usr/include/stdio.h" 2 3 4 typedef __gnuc_va_list va_list; # 91 "/usr/include/stdio.h" 3 4 typedef __off_t off_t; # 103 "/usr/include/stdio.h" 3 4 typedef __ssize_t ssize_t; typedef _G_fpos_t fpos_t; # 161 "/usr/include/stdio.h" 3 4 # 1 "/usr/include/bits/stdio_lim.h" 1 3 4 # 162 "/usr/include/stdio.h" 2 3 4 extern struct _IO_FILE *stdin; extern struct _IO_FILE *stdout; extern struct _IO_FILE *stderr; extern int remove (__const char *__filename) __attribute__ ((__nothrow__)); extern int rename (__const char *__old, __const char *__new) __attribute__ ((__nothrow__)); extern int renameat (int __oldfd, __const char *__old, int __newfd, __const char *__new) __attribute__ ((__nothrow__)); extern FILE *tmpfile (void) ; # 208 "/usr/include/stdio.h" 3 4 extern char *tmpnam (char *__s) __attribute__ ((__nothrow__)) ; extern char *tmpnam_r (char *__s) __attribute__ ((__nothrow__)) ; # 226 "/usr/include/stdio.h" 3 4 extern char *tempnam (__const char *__dir, __const char *__pfx) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int fclose (FILE *__stream); extern int fflush (FILE *__stream); # 251 "/usr/include/stdio.h" 3 4 extern int fflush_unlocked (FILE *__stream); # 265 "/usr/include/stdio.h" 3 4 extern FILE *fopen (__const char *__restrict __filename, __const char *__restrict __modes) ; extern FILE *freopen (__const char *__restrict __filename, __const char *__restrict __modes, FILE *__restrict __stream) ; # 294 "/usr/include/stdio.h" 3 4 # 305 "/usr/include/stdio.h" 3 4 extern FILE *fdopen (int __fd, __const char *__modes) __attribute__ ((__nothrow__)) ; # 318 "/usr/include/stdio.h" 3 4 extern FILE *fmemopen (void *__s, size_t __len, __const char *__modes) __attribute__ ((__nothrow__)) ; extern FILE *open_memstream (char **__bufloc, size_t *__sizeloc) __attribute__ ((__nothrow__)) ; extern void setbuf (FILE *__restrict __stream, char *__restrict __buf) __attribute__ ((__nothrow__)); extern int setvbuf (FILE *__restrict __stream, char *__restrict __buf, int __modes, size_t __n) __attribute__ ((__nothrow__)); extern void setbuffer (FILE *__restrict __stream, char *__restrict __buf, size_t __size) __attribute__ ((__nothrow__)); extern void setlinebuf (FILE *__stream) __attribute__ ((__nothrow__)); extern int fprintf (FILE *__restrict __stream, __const char *__restrict __format, ...); extern int printf (__const char *__restrict __format, ...); extern int sprintf (char *__restrict __s, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)); extern int vfprintf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg); extern int vprintf (__const char *__restrict __format, __gnuc_va_list __arg); extern int vsprintf (char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)); extern int snprintf (char *__restrict __s, size_t __maxlen, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__printf__, 3, 4))); extern int vsnprintf (char *__restrict __s, size_t __maxlen, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__printf__, 3, 0))); # 416 "/usr/include/stdio.h" 3 4 extern int vdprintf (int __fd, __const char *__restrict __fmt, __gnuc_va_list __arg) __attribute__ ((__format__ (__printf__, 2, 0))); extern int dprintf (int __fd, __const char *__restrict __fmt, ...) __attribute__ ((__format__ (__printf__, 2, 3))); extern int fscanf (FILE *__restrict __stream, __const char *__restrict __format, ...) ; extern int scanf (__const char *__restrict __format, ...) ; extern int sscanf (__const char *__restrict __s, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)); # 447 "/usr/include/stdio.h" 3 4 extern int fscanf (FILE *__restrict __stream, __const char *__restrict __format, ...) __asm__ ("" "__isoc99_fscanf") ; extern int scanf (__const char *__restrict __format, ...) __asm__ ("" "__isoc99_scanf") ; extern int sscanf (__const char *__restrict __s, __const char *__restrict __format, ...) __asm__ ("" "__isoc99_sscanf") __attribute__ ((__nothrow__)); # 467 "/usr/include/stdio.h" 3 4 extern int vfscanf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__format__ (__scanf__, 2, 0))) ; extern int vscanf (__const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__format__ (__scanf__, 1, 0))) ; extern int vsscanf (__const char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__scanf__, 2, 0))); # 498 "/usr/include/stdio.h" 3 4 extern int vfscanf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vfscanf") __attribute__ ((__format__ (__scanf__, 2, 0))) ; extern int vscanf (__const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vscanf") __attribute__ ((__format__ (__scanf__, 1, 0))) ; extern int vsscanf (__const char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vsscanf") __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__scanf__, 2, 0))); # 526 "/usr/include/stdio.h" 3 4 extern int fgetc (FILE *__stream); extern int getc (FILE *__stream); extern int getchar (void); # 554 "/usr/include/stdio.h" 3 4 extern int getc_unlocked (FILE *__stream); extern int getchar_unlocked (void); # 565 "/usr/include/stdio.h" 3 4 extern int fgetc_unlocked (FILE *__stream); extern int fputc (int __c, FILE *__stream); extern int putc (int __c, FILE *__stream); extern int putchar (int __c); # 598 "/usr/include/stdio.h" 3 4 extern int fputc_unlocked (int __c, FILE *__stream); extern int putc_unlocked (int __c, FILE *__stream); extern int putchar_unlocked (int __c); extern int getw (FILE *__stream); extern int putw (int __w, FILE *__stream); extern char *fgets (char *__restrict __s, int __n, FILE *__restrict __stream) ; extern char *gets (char *__s) ; # 660 "/usr/include/stdio.h" 3 4 extern __ssize_t __getdelim (char **__restrict __lineptr, size_t *__restrict __n, int __delimiter, FILE *__restrict __stream) ; extern __ssize_t getdelim (char **__restrict __lineptr, size_t *__restrict __n, int __delimiter, FILE *__restrict __stream) ; extern __ssize_t getline (char **__restrict __lineptr, size_t *__restrict __n, FILE *__restrict __stream) ; extern int fputs (__const char *__restrict __s, FILE *__restrict __stream); extern int puts (__const char *__s); extern int ungetc (int __c, FILE *__stream); extern size_t fread (void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern size_t fwrite (__const void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __s) ; # 732 "/usr/include/stdio.h" 3 4 extern size_t fread_unlocked (void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern size_t fwrite_unlocked (__const void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern int fseek (FILE *__stream, long int __off, int __whence); extern long int ftell (FILE *__stream) ; extern void rewind (FILE *__stream); # 768 "/usr/include/stdio.h" 3 4 extern int fseeko (FILE *__stream, __off_t __off, int __whence); extern __off_t ftello (FILE *__stream) ; # 787 "/usr/include/stdio.h" 3 4 extern int fgetpos (FILE *__restrict __stream, fpos_t *__restrict __pos); extern int fsetpos (FILE *__stream, __const fpos_t *__pos); # 810 "/usr/include/stdio.h" 3 4 # 819 "/usr/include/stdio.h" 3 4 extern void clearerr (FILE *__stream) __attribute__ ((__nothrow__)); extern int feof (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int ferror (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void clearerr_unlocked (FILE *__stream) __attribute__ ((__nothrow__)); extern int feof_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int ferror_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void perror (__const char *__s); # 1 "/usr/include/bits/sys_errlist.h" 1 3 4 # 27 "/usr/include/bits/sys_errlist.h" 3 4 extern int sys_nerr; extern __const char *__const sys_errlist[]; # 849 "/usr/include/stdio.h" 2 3 4 extern int fileno (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int fileno_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; # 868 "/usr/include/stdio.h" 3 4 extern FILE *popen (__const char *__command, __const char *__modes) ; extern int pclose (FILE *__stream); extern char *ctermid (char *__s) __attribute__ ((__nothrow__)); # 908 "/usr/include/stdio.h" 3 4 extern void flockfile (FILE *__stream) __attribute__ ((__nothrow__)); extern int ftrylockfile (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void funlockfile (FILE *__stream) __attribute__ ((__nothrow__)); # 938 "/usr/include/stdio.h" 3 4 # 27 "/usr/include/malloc.h" 2 3 4 # 48 "/usr/include/malloc.h" 3 4 extern void *malloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *calloc (size_t __nmemb, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *realloc (void *__ptr, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__warn_unused_result__)); extern void free (void *__ptr) __attribute__ ((__nothrow__)); extern void cfree (void *__ptr) __attribute__ ((__nothrow__)); extern void *memalign (size_t __alignment, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *valloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void * pvalloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *(*__morecore) (ptrdiff_t __size); extern void *__default_morecore (ptrdiff_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)); struct mallinfo { int arena; int ordblks; int smblks; int hblks; int hblkhd; int usmblks; int fsmblks; int uordblks; int fordblks; int keepcost; }; extern struct mallinfo mallinfo (void) __attribute__ ((__nothrow__)); # 135 "/usr/include/malloc.h" 3 4 extern int mallopt (int __param, int __val) __attribute__ ((__nothrow__)); extern int malloc_trim (size_t __pad) __attribute__ ((__nothrow__)); extern size_t malloc_usable_size (void *__ptr) __attribute__ ((__nothrow__)); extern void malloc_stats (void) __attribute__ ((__nothrow__)); extern int malloc_info (int __options, FILE *__fp); extern void *malloc_get_state (void) __attribute__ ((__nothrow__)); extern int malloc_set_state (void *__ptr) __attribute__ ((__nothrow__)); extern void (*__malloc_initialize_hook) (void); extern void (*__free_hook) (void *__ptr, __const void *) ; extern void *(*__malloc_hook) (size_t __size, __const void *) ; extern void *(*__realloc_hook) (void *__ptr, size_t __size, __const void *) ; extern void *(*__memalign_hook) (size_t __alignment, size_t __size, __const void *) ; extern void (*__after_morecore_hook) (void); extern void __malloc_check_init (void) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MALLOC_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: time.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/time.h" 1 3 4 # 28 "/usr/include/time.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 29 "/usr/include/time.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 39 "/usr/include/time.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 43 "/usr/include/time.h" 2 3 4 # 56 "/usr/include/time.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 57 "/usr/include/time.h" 2 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; struct tm { int tm_sec; int tm_min; int tm_hour; int tm_mday; int tm_mon; int tm_year; int tm_wday; int tm_yday; int tm_isdst; long int tm_gmtoff; __const char *tm_zone; }; struct itimerspec { struct timespec it_interval; struct timespec it_value; }; struct sigevent; typedef __pid_t pid_t; extern clock_t clock (void) __attribute__ ((__nothrow__)); extern time_t time (time_t *__timer) __attribute__ ((__nothrow__)); extern double difftime (time_t __time1, time_t __time0) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern time_t mktime (struct tm *__tp) __attribute__ ((__nothrow__)); extern size_t strftime (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp) __attribute__ ((__nothrow__)); # 215 "/usr/include/time.h" 3 4 # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 216 "/usr/include/time.h" 2 3 4 extern size_t strftime_l (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp, __locale_t __loc) __attribute__ ((__nothrow__)); # 230 "/usr/include/time.h" 3 4 extern struct tm *gmtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *localtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *gmtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern struct tm *localtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern char *asctime (__const struct tm *__tp) __attribute__ ((__nothrow__)); extern char *ctime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern char *asctime_r (__const struct tm *__restrict __tp, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *ctime_r (__const time_t *__restrict __timer, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *__tzname[2]; extern int __daylight; extern long int __timezone; extern char *tzname[2]; extern void tzset (void) __attribute__ ((__nothrow__)); extern int daylight; extern long int timezone; extern int stime (__const time_t *__when) __attribute__ ((__nothrow__)); # 313 "/usr/include/time.h" 3 4 extern time_t timegm (struct tm *__tp) __attribute__ ((__nothrow__)); extern time_t timelocal (struct tm *__tp) __attribute__ ((__nothrow__)); extern int dysize (int __year) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 328 "/usr/include/time.h" 3 4 extern int nanosleep (__const struct timespec *__requested_time, struct timespec *__remaining); extern int clock_getres (clockid_t __clock_id, struct timespec *__res) __attribute__ ((__nothrow__)); extern int clock_gettime (clockid_t __clock_id, struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_settime (clockid_t __clock_id, __const struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_nanosleep (clockid_t __clock_id, int __flags, __const struct timespec *__req, struct timespec *__rem); extern int clock_getcpuclockid (pid_t __pid, clockid_t *__clock_id) __attribute__ ((__nothrow__)); extern int timer_create (clockid_t __clock_id, struct sigevent *__restrict __evp, timer_t *__restrict __timerid) __attribute__ ((__nothrow__)); extern int timer_delete (timer_t __timerid) __attribute__ ((__nothrow__)); extern int timer_settime (timer_t __timerid, int __flags, __const struct itimerspec *__restrict __value, struct itimerspec *__restrict __ovalue) __attribute__ ((__nothrow__)); extern int timer_gettime (timer_t __timerid, struct itimerspec *__value) __attribute__ ((__nothrow__)); extern int timer_getoverrun (timer_t __timerid) __attribute__ ((__nothrow__)); # 417 "/usr/include/time.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: Direct.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: Ws2tcpip.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: endian.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/endian.h" 1 3 4 # 22 "/usr/include/endian.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 23 "/usr/include/endian.h" 2 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_ENDIAN_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: ieeefp.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: strings.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/strings.h" 1 3 4 # 28 "/usr/include/strings.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 29 "/usr/include/strings.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 31 "/usr/include/strings.h" 2 3 4 extern int bcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)); extern void bcopy (__const void *__src, void *__dest, size_t __n) __attribute__ ((__nothrow__)); extern void bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)); # 74 "/usr/include/strings.h" 3 4 extern char *index (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 102 "/usr/include/strings.h" 3 4 extern char *rindex (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern int ffs (int __i) __attribute__ ((__nothrow__)) __attribute__ ((const)); extern int strcasecmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)); extern int strncasecmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)); # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 126 "/usr/include/strings.h" 2 3 4 extern int strcasecmp_l (__const char *__s1, __const char *__s2, __locale_t __loc) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2, 3))); extern int strncasecmp_l (__const char *__s1, __const char *__s2, size_t __n, __locale_t __loc) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2, 4))); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRINGS_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: inttypes.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/inttypes.h" 1 3 4 # 26 "/usr/include/inttypes.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/inttypes.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 27 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 37 "/usr/include/stdint.h" 3 4 typedef signed char int8_t; typedef short int int16_t; typedef int int32_t; typedef long int int64_t; typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 29 "/usr/include/inttypes.h" 2 3 4 typedef int __gwchar_t; # 274 "/usr/include/inttypes.h" 3 4 typedef struct { long int quot; long int rem; } imaxdiv_t; # 298 "/usr/include/inttypes.h" 3 4 extern intmax_t imaxabs (intmax_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern imaxdiv_t imaxdiv (intmax_t __numer, intmax_t __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern intmax_t strtoimax (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t strtoumax (__const char *__restrict __nptr, char ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern intmax_t wcstoimax (__const __gwchar_t *__restrict __nptr, __gwchar_t **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t wcstoumax (__const __gwchar_t *__restrict __nptr, __gwchar_t ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); # 442 "/usr/include/inttypes.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_INTTYPES_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sched.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sched.h" 1 3 4 # 24 "/usr/include/sched.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 25 "/usr/include/sched.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 28 "/usr/include/sched.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 31 "/usr/include/sched.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 35 "/usr/include/sched.h" 2 3 4 typedef __pid_t pid_t; # 1 "/usr/include/bits/sched.h" 1 3 4 # 74 "/usr/include/bits/sched.h" 3 4 struct sched_param { int __sched_priority; }; extern int clone (int (*__fn) (void *__arg), void *__child_stack, int __flags, void *__arg, ...) __attribute__ ((__nothrow__)); extern int unshare (int __flags) __attribute__ ((__nothrow__)); extern int sched_getcpu (void) __attribute__ ((__nothrow__)); struct __sched_param { int __sched_priority; }; # 116 "/usr/include/bits/sched.h" 3 4 typedef unsigned long int __cpu_mask; typedef struct { __cpu_mask __bits[1024 / (8 * sizeof (__cpu_mask))]; } cpu_set_t; # 199 "/usr/include/bits/sched.h" 3 4 extern int __sched_cpucount (size_t __setsize, const cpu_set_t *__setp) __attribute__ ((__nothrow__)); extern cpu_set_t *__sched_cpualloc (size_t __count) __attribute__ ((__nothrow__)) ; extern void __sched_cpufree (cpu_set_t *__set) __attribute__ ((__nothrow__)); # 44 "/usr/include/sched.h" 2 3 4 extern int sched_setparam (__pid_t __pid, __const struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_getparam (__pid_t __pid, struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_setscheduler (__pid_t __pid, int __policy, __const struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_getscheduler (__pid_t __pid) __attribute__ ((__nothrow__)); extern int sched_yield (void) __attribute__ ((__nothrow__)); extern int sched_get_priority_max (int __algorithm) __attribute__ ((__nothrow__)); extern int sched_get_priority_min (int __algorithm) __attribute__ ((__nothrow__)); extern int sched_rr_get_interval (__pid_t __pid, struct timespec *__t) __attribute__ ((__nothrow__)); # 126 "/usr/include/sched.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SCHED_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: cxxabi.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/systeminfo.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: dos.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: WindowsX.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/sysinfo.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/sysinfo.h" 1 3 4 # 22 "/usr/include/sys/sysinfo.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 23 "/usr/include/sys/sysinfo.h" 2 3 4 # 1 "/usr/include/linux/kernel.h" 1 3 4 # 11 "/usr/include/linux/kernel.h" 3 4 struct sysinfo { long uptime; unsigned long loads[3]; unsigned long totalram; unsigned long freeram; unsigned long sharedram; unsigned long bufferram; unsigned long totalswap; unsigned long freeswap; unsigned short procs; unsigned short pad; unsigned long totalhigh; unsigned long freehigh; unsigned int mem_unit; char _f[20-2*sizeof(long)-sizeof(int)]; }; # 67 "/usr/include/linux/kernel.h" 3 4 struct module; void mark_hardware_unsupported(const char *msg); void mark_tech_preview(const char *msg, struct module *mod); # 26 "/usr/include/sys/sysinfo.h" 2 3 4 extern int sysinfo (struct sysinfo *__info) __attribute__ ((__nothrow__)); extern int get_nprocs_conf (void) __attribute__ ((__nothrow__)); extern int get_nprocs (void) __attribute__ ((__nothrow__)); extern long int get_phys_pages (void) __attribute__ ((__nothrow__)); extern long int get_avphys_pages (void) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/wait.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/wait.h" 1 3 4 # 27 "/usr/include/sys/wait.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/sys/wait.h" 2 3 4 # 1 "/usr/include/signal.h" 1 3 4 # 31 "/usr/include/signal.h" 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 104 "/usr/include/bits/sigset.h" 3 4 extern int __sigismember (__const __sigset_t *, int); extern int __sigaddset (__sigset_t *, int); extern int __sigdelset (__sigset_t *, int); # 34 "/usr/include/signal.h" 2 3 4 typedef __sig_atomic_t sig_atomic_t; typedef __sigset_t sigset_t; # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 58 "/usr/include/signal.h" 2 3 4 # 1 "/usr/include/bits/signum.h" 1 3 4 # 59 "/usr/include/signal.h" 2 3 4 typedef __pid_t pid_t; typedef __uid_t uid_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 77 "/usr/include/signal.h" 2 3 4 # 1 "/usr/include/bits/siginfo.h" 1 3 4 # 25 "/usr/include/bits/siginfo.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 26 "/usr/include/bits/siginfo.h" 2 3 4 typedef union sigval { int sival_int; void *sival_ptr; } sigval_t; # 51 "/usr/include/bits/siginfo.h" 3 4 typedef struct siginfo { int si_signo; int si_errno; int si_code; union { int _pad[((128 / sizeof (int)) - 4)]; struct { __pid_t si_pid; __uid_t si_uid; } _kill; struct { int si_tid; int si_overrun; sigval_t si_sigval; } _timer; struct { __pid_t si_pid; __uid_t si_uid; sigval_t si_sigval; } _rt; struct { __pid_t si_pid; __uid_t si_uid; int si_status; __clock_t si_utime; __clock_t si_stime; } _sigchld; struct { void *si_addr; } _sigfault; struct { long int si_band; int si_fd; } _sigpoll; } _sifields; } siginfo_t; # 129 "/usr/include/bits/siginfo.h" 3 4 enum { SI_ASYNCNL = -60, SI_TKILL = -6, SI_SIGIO, SI_ASYNCIO, SI_MESGQ, SI_TIMER, SI_QUEUE, SI_USER, SI_KERNEL = 0x80 }; enum { ILL_ILLOPC = 1, ILL_ILLOPN, ILL_ILLADR, ILL_ILLTRP, ILL_PRVOPC, ILL_PRVREG, ILL_COPROC, ILL_BADSTK }; enum { FPE_INTDIV = 1, FPE_INTOVF, FPE_FLTDIV, FPE_FLTOVF, FPE_FLTUND, FPE_FLTRES, FPE_FLTINV, FPE_FLTSUB }; enum { SEGV_MAPERR = 1, SEGV_ACCERR }; enum { BUS_ADRALN = 1, BUS_ADRERR, BUS_OBJERR }; enum { TRAP_BRKPT = 1, TRAP_TRACE }; enum { CLD_EXITED = 1, CLD_KILLED, CLD_DUMPED, CLD_TRAPPED, CLD_STOPPED, CLD_CONTINUED }; enum { POLL_IN = 1, POLL_OUT, POLL_MSG, POLL_ERR, POLL_PRI, POLL_HUP }; # 273 "/usr/include/bits/siginfo.h" 3 4 typedef struct sigevent { sigval_t sigev_value; int sigev_signo; int sigev_notify; union { int _pad[((64 / sizeof (int)) - 4)]; __pid_t _tid; struct { void (*_function) (sigval_t); void *_attribute; } _sigev_thread; } _sigev_un; } sigevent_t; enum { SIGEV_SIGNAL = 0, SIGEV_NONE, SIGEV_THREAD, SIGEV_THREAD_ID = 4 }; # 80 "/usr/include/signal.h" 2 3 4 typedef void (*__sighandler_t) (int); extern __sighandler_t __sysv_signal (int __sig, __sighandler_t __handler) __attribute__ ((__nothrow__)); # 99 "/usr/include/signal.h" 3 4 extern __sighandler_t signal (int __sig, __sighandler_t __handler) __attribute__ ((__nothrow__)); # 113 "/usr/include/signal.h" 3 4 # 126 "/usr/include/signal.h" 3 4 extern int kill (__pid_t __pid, int __sig) __attribute__ ((__nothrow__)); extern int killpg (__pid_t __pgrp, int __sig) __attribute__ ((__nothrow__)); extern int raise (int __sig) __attribute__ ((__nothrow__)); extern __sighandler_t ssignal (int __sig, __sighandler_t __handler) __attribute__ ((__nothrow__)); extern int gsignal (int __sig) __attribute__ ((__nothrow__)); extern void psignal (int __sig, __const char *__s); extern void psiginfo (__const siginfo_t *__pinfo, __const char *__s); # 168 "/usr/include/signal.h" 3 4 extern int __sigpause (int __sig_or_mask, int __is_sig); # 196 "/usr/include/signal.h" 3 4 extern int sigblock (int __mask) __attribute__ ((__nothrow__)) __attribute__ ((__deprecated__)); extern int sigsetmask (int __mask) __attribute__ ((__nothrow__)) __attribute__ ((__deprecated__)); extern int siggetmask (void) __attribute__ ((__nothrow__)) __attribute__ ((__deprecated__)); # 216 "/usr/include/signal.h" 3 4 typedef __sighandler_t sig_t; extern int sigemptyset (sigset_t *__set) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sigfillset (sigset_t *__set) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sigaddset (sigset_t *__set, int __signo) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sigdelset (sigset_t *__set, int __signo) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sigismember (__const sigset_t *__set, int __signo) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 252 "/usr/include/signal.h" 3 4 # 1 "/usr/include/bits/sigaction.h" 1 3 4 # 25 "/usr/include/bits/sigaction.h" 3 4 struct sigaction { union { __sighandler_t sa_handler; void (*sa_sigaction) (int, siginfo_t *, void *); } __sigaction_handler; __sigset_t sa_mask; int sa_flags; void (*sa_restorer) (void); }; # 253 "/usr/include/signal.h" 2 3 4 extern int sigprocmask (int __how, __const sigset_t *__restrict __set, sigset_t *__restrict __oset) __attribute__ ((__nothrow__)); extern int sigsuspend (__const sigset_t *__set) __attribute__ ((__nonnull__ (1))); extern int sigaction (int __sig, __const struct sigaction *__restrict __act, struct sigaction *__restrict __oact) __attribute__ ((__nothrow__)); extern int sigpending (sigset_t *__set) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sigwait (__const sigset_t *__restrict __set, int *__restrict __sig) __attribute__ ((__nonnull__ (1, 2))); extern int sigwaitinfo (__const sigset_t *__restrict __set, siginfo_t *__restrict __info) __attribute__ ((__nonnull__ (1))); extern int sigtimedwait (__const sigset_t *__restrict __set, siginfo_t *__restrict __info, __const struct timespec *__restrict __timeout) __attribute__ ((__nonnull__ (1))); extern int sigqueue (__pid_t __pid, int __sig, __const union sigval __val) __attribute__ ((__nothrow__)); # 310 "/usr/include/signal.h" 3 4 extern __const char *__const _sys_siglist[65]; extern __const char *__const sys_siglist[65]; struct sigvec { __sighandler_t sv_handler; int sv_mask; int sv_flags; }; # 334 "/usr/include/signal.h" 3 4 extern int sigvec (int __sig, __const struct sigvec *__vec, struct sigvec *__ovec) __attribute__ ((__nothrow__)); # 1 "/usr/include/bits/sigcontext.h" 1 3 4 # 26 "/usr/include/bits/sigcontext.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 27 "/usr/include/bits/sigcontext.h" 2 3 4 struct _fpreg { unsigned short significand[4]; unsigned short exponent; }; struct _fpxreg { unsigned short significand[4]; unsigned short exponent; unsigned short padding[3]; }; struct _xmmreg { __uint32_t element[4]; }; # 109 "/usr/include/bits/sigcontext.h" 3 4 struct _fpstate { __uint16_t cwd; __uint16_t swd; __uint16_t ftw; __uint16_t fop; __uint64_t rip; __uint64_t rdp; __uint32_t mxcsr; __uint32_t mxcr_mask; struct _fpxreg _st[8]; struct _xmmreg _xmm[16]; __uint32_t padding[24]; }; struct sigcontext { unsigned long r8; unsigned long r9; unsigned long r10; unsigned long r11; unsigned long r12; unsigned long r13; unsigned long r14; unsigned long r15; unsigned long rdi; unsigned long rsi; unsigned long rbp; unsigned long rbx; unsigned long rdx; unsigned long rax; unsigned long rcx; unsigned long rsp; unsigned long rip; unsigned long eflags; unsigned short cs; unsigned short gs; unsigned short fs; unsigned short __pad0; unsigned long err; unsigned long trapno; unsigned long oldmask; unsigned long cr2; struct _fpstate * fpstate; unsigned long __reserved1 [8]; }; # 340 "/usr/include/signal.h" 2 3 4 extern int sigreturn (struct sigcontext *__scp) __attribute__ ((__nothrow__)); # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 350 "/usr/include/signal.h" 2 3 4 extern int siginterrupt (int __sig, int __interrupt) __attribute__ ((__nothrow__)); # 1 "/usr/include/bits/sigstack.h" 1 3 4 # 26 "/usr/include/bits/sigstack.h" 3 4 struct sigstack { void *ss_sp; int ss_onstack; }; enum { SS_ONSTACK = 1, SS_DISABLE }; # 50 "/usr/include/bits/sigstack.h" 3 4 typedef struct sigaltstack { void *ss_sp; int ss_flags; size_t ss_size; } stack_t; # 357 "/usr/include/signal.h" 2 3 4 # 1 "/usr/include/sys/ucontext.h" 1 3 4 # 23 "/usr/include/sys/ucontext.h" 3 4 # 1 "/usr/include/signal.h" 1 3 4 # 24 "/usr/include/sys/ucontext.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 25 "/usr/include/sys/ucontext.h" 2 3 4 # 33 "/usr/include/sys/ucontext.h" 3 4 typedef long int greg_t; typedef greg_t gregset_t[23]; # 94 "/usr/include/sys/ucontext.h" 3 4 struct _libc_fpxreg { unsigned short int significand[4]; unsigned short int exponent; unsigned short int padding[3]; }; struct _libc_xmmreg { __uint32_t element[4]; }; struct _libc_fpstate { __uint16_t cwd; __uint16_t swd; __uint16_t ftw; __uint16_t fop; __uint64_t rip; __uint64_t rdp; __uint32_t mxcsr; __uint32_t mxcr_mask; struct _libc_fpxreg _st[8]; struct _libc_xmmreg _xmm[16]; __uint32_t padding[24]; }; typedef struct _libc_fpstate *fpregset_t; typedef struct { gregset_t gregs; fpregset_t fpregs; unsigned long __reserved1 [8]; } mcontext_t; typedef struct ucontext { unsigned long int uc_flags; struct ucontext *uc_link; stack_t uc_stack; mcontext_t uc_mcontext; __sigset_t uc_sigmask; struct _libc_fpstate __fpregs_mem; } ucontext_t; # 360 "/usr/include/signal.h" 2 3 4 extern int sigstack (struct sigstack *__ss, struct sigstack *__oss) __attribute__ ((__nothrow__)) __attribute__ ((__deprecated__)); extern int sigaltstack (__const struct sigaltstack *__restrict __ss, struct sigaltstack *__restrict __oss) __attribute__ ((__nothrow__)); # 394 "/usr/include/signal.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 395 "/usr/include/signal.h" 2 3 4 # 1 "/usr/include/bits/sigthread.h" 1 3 4 # 31 "/usr/include/bits/sigthread.h" 3 4 extern int pthread_sigmask (int __how, __const __sigset_t *__restrict __newmask, __sigset_t *__restrict __oldmask)__attribute__ ((__nothrow__)); extern int pthread_kill (pthread_t __threadid, int __signo) __attribute__ ((__nothrow__)); # 396 "/usr/include/signal.h" 2 3 4 extern int __libc_current_sigrtmin (void) __attribute__ ((__nothrow__)); extern int __libc_current_sigrtmax (void) __attribute__ ((__nothrow__)); # 32 "/usr/include/sys/wait.h" 2 3 4 # 1 "/usr/include/sys/resource.h" 1 3 4 # 25 "/usr/include/sys/resource.h" 3 4 # 1 "/usr/include/bits/resource.h" 1 3 4 # 33 "/usr/include/bits/resource.h" 3 4 enum __rlimit_resource { RLIMIT_CPU = 0, RLIMIT_FSIZE = 1, RLIMIT_DATA = 2, RLIMIT_STACK = 3, RLIMIT_CORE = 4, __RLIMIT_RSS = 5, RLIMIT_NOFILE = 7, __RLIMIT_OFILE = RLIMIT_NOFILE, RLIMIT_AS = 9, __RLIMIT_NPROC = 6, __RLIMIT_MEMLOCK = 8, __RLIMIT_LOCKS = 10, __RLIMIT_SIGPENDING = 11, __RLIMIT_MSGQUEUE = 12, __RLIMIT_NICE = 13, __RLIMIT_RTPRIO = 14, __RLIMIT_NLIMITS = 15, __RLIM_NLIMITS = __RLIMIT_NLIMITS }; # 127 "/usr/include/bits/resource.h" 3 4 typedef __rlim_t rlim_t; struct rlimit { rlim_t rlim_cur; rlim_t rlim_max; }; # 154 "/usr/include/bits/resource.h" 3 4 enum __rusage_who { RUSAGE_SELF = 0, RUSAGE_CHILDREN = -1 # 172 "/usr/include/bits/resource.h" 3 4 }; # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 176 "/usr/include/bits/resource.h" 2 3 4 struct rusage { struct timeval ru_utime; struct timeval ru_stime; long int ru_maxrss; long int ru_ixrss; long int ru_idrss; long int ru_isrss; long int ru_minflt; long int ru_majflt; long int ru_nswap; long int ru_inblock; long int ru_oublock; long int ru_msgsnd; long int ru_msgrcv; long int ru_nsignals; long int ru_nvcsw; long int ru_nivcsw; }; enum __priority_which { PRIO_PROCESS = 0, PRIO_PGRP = 1, PRIO_USER = 2 }; # 26 "/usr/include/sys/resource.h" 2 3 4 typedef __id_t id_t; # 43 "/usr/include/sys/resource.h" 3 4 typedef int __rlimit_resource_t; typedef int __rusage_who_t; typedef int __priority_which_t; extern int getrlimit (__rlimit_resource_t __resource, struct rlimit *__rlimits) __attribute__ ((__nothrow__)); # 70 "/usr/include/sys/resource.h" 3 4 extern int setrlimit (__rlimit_resource_t __resource, __const struct rlimit *__rlimits) __attribute__ ((__nothrow__)); # 88 "/usr/include/sys/resource.h" 3 4 extern int getrusage (__rusage_who_t __who, struct rusage *__usage) __attribute__ ((__nothrow__)); extern int getpriority (__priority_which_t __which, id_t __who) __attribute__ ((__nothrow__)); extern int setpriority (__priority_which_t __which, id_t __who, int __prio) __attribute__ ((__nothrow__)); # 33 "/usr/include/sys/wait.h" 2 3 4 # 1 "/usr/include/bits/waitflags.h" 1 3 4 # 39 "/usr/include/sys/wait.h" 2 3 4 # 63 "/usr/include/sys/wait.h" 3 4 typedef union { union wait *__uptr; int *__iptr; } __WAIT_STATUS __attribute__ ((__transparent_union__)); # 80 "/usr/include/sys/wait.h" 3 4 # 1 "/usr/include/bits/waitstatus.h" 1 3 4 # 65 "/usr/include/bits/waitstatus.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 66 "/usr/include/bits/waitstatus.h" 2 3 4 union wait { int w_status; struct { unsigned int __w_termsig:7; unsigned int __w_coredump:1; unsigned int __w_retcode:8; unsigned int:16; } __wait_terminated; struct { unsigned int __w_stopval:8; unsigned int __w_stopsig:8; unsigned int:16; } __wait_stopped; }; # 81 "/usr/include/sys/wait.h" 2 3 4 # 102 "/usr/include/sys/wait.h" 3 4 typedef enum { P_ALL, P_PID, P_PGID } idtype_t; # 116 "/usr/include/sys/wait.h" 3 4 extern __pid_t wait (__WAIT_STATUS __stat_loc); # 139 "/usr/include/sys/wait.h" 3 4 extern __pid_t waitpid (__pid_t __pid, int *__stat_loc, int __options); # 1 "/usr/include/bits/siginfo.h" 1 3 4 # 25 "/usr/include/bits/siginfo.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 26 "/usr/include/bits/siginfo.h" 2 3 4 # 144 "/usr/include/sys/wait.h" 2 3 4 # 155 "/usr/include/sys/wait.h" 3 4 extern int waitid (idtype_t __idtype, __id_t __id, siginfo_t *__infop, int __options); struct rusage; extern __pid_t wait3 (__WAIT_STATUS __stat_loc, int __options, struct rusage * __usage) __attribute__ ((__nothrow__)); extern __pid_t wait4 (__pid_t __pid, __WAIT_STATUS __stat_loc, int __options, struct rusage *__usage) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_WAIT_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: stdlib.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/stdlib.h" 1 3 4 # 25 "/usr/include/stdlib.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 26 "/usr/include/stdlib.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 34 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitflags.h" 1 3 4 # 43 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitstatus.h" 1 3 4 # 65 "/usr/include/bits/waitstatus.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 66 "/usr/include/bits/waitstatus.h" 2 3 4 union wait { int w_status; struct { unsigned int __w_termsig:7; unsigned int __w_coredump:1; unsigned int __w_retcode:8; unsigned int:16; } __wait_terminated; struct { unsigned int __w_stopval:8; unsigned int __w_stopsig:8; unsigned int:16; } __wait_stopped; }; # 44 "/usr/include/stdlib.h" 2 3 4 # 68 "/usr/include/stdlib.h" 3 4 typedef union { union wait *__uptr; int *__iptr; } __WAIT_STATUS __attribute__ ((__transparent_union__)); # 96 "/usr/include/stdlib.h" 3 4 typedef struct { int quot; int rem; } div_t; typedef struct { long int quot; long int rem; } ldiv_t; __extension__ typedef struct { long long int quot; long long int rem; } lldiv_t; # 140 "/usr/include/stdlib.h" 3 4 extern size_t __ctype_get_mb_cur_max (void) __attribute__ ((__nothrow__)) ; extern double atof (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern int atoi (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern long int atol (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int atoll (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern double strtod (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern float strtof (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long double strtold (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long int strtol (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern unsigned long int strtoul (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtouq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoll (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtoull (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 311 "/usr/include/stdlib.h" 3 4 extern char *l64a (long int __n) __attribute__ ((__nothrow__)) ; extern long int a64l (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 220 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 321 "/usr/include/stdlib.h" 2 3 4 extern long int random (void) __attribute__ ((__nothrow__)); extern void srandom (unsigned int __seed) __attribute__ ((__nothrow__)); extern char *initstate (unsigned int __seed, char *__statebuf, size_t __statelen) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *setstate (char *__statebuf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct random_data { int32_t *fptr; int32_t *rptr; int32_t *state; int rand_type; int rand_deg; int rand_sep; int32_t *end_ptr; }; extern int random_r (struct random_data *__restrict __buf, int32_t *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srandom_r (unsigned int __seed, struct random_data *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int initstate_r (unsigned int __seed, char *__restrict __statebuf, size_t __statelen, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern int setstate_r (char *__restrict __statebuf, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int rand (void) __attribute__ ((__nothrow__)); extern void srand (unsigned int __seed) __attribute__ ((__nothrow__)); extern int rand_r (unsigned int *__seed) __attribute__ ((__nothrow__)); extern double drand48 (void) __attribute__ ((__nothrow__)); extern double erand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int lrand48 (void) __attribute__ ((__nothrow__)); extern long int nrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int mrand48 (void) __attribute__ ((__nothrow__)); extern long int jrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void srand48 (long int __seedval) __attribute__ ((__nothrow__)); extern unsigned short int *seed48 (unsigned short int __seed16v[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void lcong48 (unsigned short int __param[7]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct drand48_data { unsigned short int __x[3]; unsigned short int __old_x[3]; unsigned short int __c; unsigned short int __init; unsigned long long int __a; }; extern int drand48_r (struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int erand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int nrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int mrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int jrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srand48_r (long int __seedval, struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int seed48_r (unsigned short int __seed16v[3], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lcong48_r (unsigned short int __param[7], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *malloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *calloc (size_t __nmemb, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *realloc (void *__ptr, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__warn_unused_result__)); extern void free (void *__ptr) __attribute__ ((__nothrow__)); extern void cfree (void *__ptr) __attribute__ ((__nothrow__)); # 1 "/usr/include/alloca.h" 1 3 4 # 25 "/usr/include/alloca.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 26 "/usr/include/alloca.h" 2 3 4 extern void *alloca (size_t __size) __attribute__ ((__nothrow__)); # 498 "/usr/include/stdlib.h" 2 3 4 extern void *valloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int posix_memalign (void **__memptr, size_t __alignment, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern void abort (void) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern int atexit (void (*__func) (void)) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 531 "/usr/include/stdlib.h" 3 4 extern int on_exit (void (*__func) (int __status, void *__arg), void *__arg) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); # 554 "/usr/include/stdlib.h" 3 4 extern void _Exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern char *getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern char *__secure_getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int putenv (char *__string) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int setenv (__const char *__name, __const char *__value, int __replace) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int unsetenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int clearenv (void) __attribute__ ((__nothrow__)); # 606 "/usr/include/stdlib.h" 3 4 extern char *mktemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 620 "/usr/include/stdlib.h" 3 4 extern int mkstemp (char *__template) __attribute__ ((__nonnull__ (1))) ; # 642 "/usr/include/stdlib.h" 3 4 extern int mkstemps (char *__template, int __suffixlen) __attribute__ ((__nonnull__ (1))) ; # 663 "/usr/include/stdlib.h" 3 4 extern char *mkdtemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 712 "/usr/include/stdlib.h" 3 4 extern int system (__const char *__command) ; # 734 "/usr/include/stdlib.h" 3 4 extern char *realpath (__const char *__restrict __name, char *__restrict __resolved) __attribute__ ((__nothrow__)) ; typedef int (*__compar_fn_t) (__const void *, __const void *); # 752 "/usr/include/stdlib.h" 3 4 extern void *bsearch (__const void *__key, __const void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 2, 5))) ; extern void qsort (void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 4))); # 771 "/usr/include/stdlib.h" 3 4 extern int abs (int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern long int labs (long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern long long int llabs (long long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern div_t div (int __numer, int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern ldiv_t ldiv (long int __numer, long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern lldiv_t lldiv (long long int __numer, long long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; # 808 "/usr/include/stdlib.h" 3 4 extern char *ecvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *fcvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *gcvt (double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern char *qecvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qfcvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qgcvt (long double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern int ecvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int fcvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qecvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qfcvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int mblen (__const char *__s, size_t __n) __attribute__ ((__nothrow__)) ; extern int mbtowc (wchar_t *__restrict __pwc, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)) ; extern int wctomb (char *__s, wchar_t __wchar) __attribute__ ((__nothrow__)) ; extern size_t mbstowcs (wchar_t *__restrict __pwcs, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)); extern size_t wcstombs (char *__restrict __s, __const wchar_t *__restrict __pwcs, size_t __n) __attribute__ ((__nothrow__)); extern int rpmatch (__const char *__response) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 896 "/usr/include/stdlib.h" 3 4 extern int getsubopt (char **__restrict __optionp, char *__const *__restrict __tokens, char **__restrict __valuep) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2, 3))) ; # 948 "/usr/include/stdlib.h" 3 4 extern int getloadavg (double __loadavg[], int __nelem) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 964 "/usr/include/stdlib.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDLIB_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: pthread.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/pthread.h" 1 3 4 # 23 "/usr/include/pthread.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 25 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/sched.h" 1 3 4 # 27 "/usr/include/sched.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 28 "/usr/include/sched.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 31 "/usr/include/sched.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 35 "/usr/include/sched.h" 2 3 4 typedef __pid_t pid_t; # 1 "/usr/include/bits/sched.h" 1 3 4 # 74 "/usr/include/bits/sched.h" 3 4 struct sched_param { int __sched_priority; }; extern int clone (int (*__fn) (void *__arg), void *__child_stack, int __flags, void *__arg, ...) __attribute__ ((__nothrow__)); extern int unshare (int __flags) __attribute__ ((__nothrow__)); extern int sched_getcpu (void) __attribute__ ((__nothrow__)); struct __sched_param { int __sched_priority; }; # 116 "/usr/include/bits/sched.h" 3 4 typedef unsigned long int __cpu_mask; typedef struct { __cpu_mask __bits[1024 / (8 * sizeof (__cpu_mask))]; } cpu_set_t; # 199 "/usr/include/bits/sched.h" 3 4 extern int __sched_cpucount (size_t __setsize, const cpu_set_t *__setp) __attribute__ ((__nothrow__)); extern cpu_set_t *__sched_cpualloc (size_t __count) __attribute__ ((__nothrow__)) ; extern void __sched_cpufree (cpu_set_t *__set) __attribute__ ((__nothrow__)); # 44 "/usr/include/sched.h" 2 3 4 extern int sched_setparam (__pid_t __pid, __const struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_getparam (__pid_t __pid, struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_setscheduler (__pid_t __pid, int __policy, __const struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_getscheduler (__pid_t __pid) __attribute__ ((__nothrow__)); extern int sched_yield (void) __attribute__ ((__nothrow__)); extern int sched_get_priority_max (int __algorithm) __attribute__ ((__nothrow__)); extern int sched_get_priority_min (int __algorithm) __attribute__ ((__nothrow__)); extern int sched_rr_get_interval (__pid_t __pid, struct timespec *__t) __attribute__ ((__nothrow__)); # 126 "/usr/include/sched.h" 3 4 # 26 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 30 "/usr/include/time.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 39 "/usr/include/time.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 43 "/usr/include/time.h" 2 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 131 "/usr/include/time.h" 3 4 struct tm { int tm_sec; int tm_min; int tm_hour; int tm_mday; int tm_mon; int tm_year; int tm_wday; int tm_yday; int tm_isdst; long int tm_gmtoff; __const char *tm_zone; }; struct itimerspec { struct timespec it_interval; struct timespec it_value; }; struct sigevent; # 180 "/usr/include/time.h" 3 4 extern clock_t clock (void) __attribute__ ((__nothrow__)); extern time_t time (time_t *__timer) __attribute__ ((__nothrow__)); extern double difftime (time_t __time1, time_t __time0) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern time_t mktime (struct tm *__tp) __attribute__ ((__nothrow__)); extern size_t strftime (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp) __attribute__ ((__nothrow__)); # 215 "/usr/include/time.h" 3 4 # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 216 "/usr/include/time.h" 2 3 4 extern size_t strftime_l (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp, __locale_t __loc) __attribute__ ((__nothrow__)); # 230 "/usr/include/time.h" 3 4 extern struct tm *gmtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *localtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *gmtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern struct tm *localtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern char *asctime (__const struct tm *__tp) __attribute__ ((__nothrow__)); extern char *ctime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern char *asctime_r (__const struct tm *__restrict __tp, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *ctime_r (__const time_t *__restrict __timer, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *__tzname[2]; extern int __daylight; extern long int __timezone; extern char *tzname[2]; extern void tzset (void) __attribute__ ((__nothrow__)); extern int daylight; extern long int timezone; extern int stime (__const time_t *__when) __attribute__ ((__nothrow__)); # 313 "/usr/include/time.h" 3 4 extern time_t timegm (struct tm *__tp) __attribute__ ((__nothrow__)); extern time_t timelocal (struct tm *__tp) __attribute__ ((__nothrow__)); extern int dysize (int __year) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 328 "/usr/include/time.h" 3 4 extern int nanosleep (__const struct timespec *__requested_time, struct timespec *__remaining); extern int clock_getres (clockid_t __clock_id, struct timespec *__res) __attribute__ ((__nothrow__)); extern int clock_gettime (clockid_t __clock_id, struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_settime (clockid_t __clock_id, __const struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_nanosleep (clockid_t __clock_id, int __flags, __const struct timespec *__req, struct timespec *__rem); extern int clock_getcpuclockid (pid_t __pid, clockid_t *__clock_id) __attribute__ ((__nothrow__)); extern int timer_create (clockid_t __clock_id, struct sigevent *__restrict __evp, timer_t *__restrict __timerid) __attribute__ ((__nothrow__)); extern int timer_delete (timer_t __timerid) __attribute__ ((__nothrow__)); extern int timer_settime (timer_t __timerid, int __flags, __const struct itimerspec *__restrict __value, struct itimerspec *__restrict __ovalue) __attribute__ ((__nothrow__)); extern int timer_gettime (timer_t __timerid, struct itimerspec *__value) __attribute__ ((__nothrow__)); extern int timer_getoverrun (timer_t __timerid) __attribute__ ((__nothrow__)); # 417 "/usr/include/time.h" 3 4 # 27 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 29 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/bits/setjmp.h" 1 3 4 # 27 "/usr/include/bits/setjmp.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 28 "/usr/include/bits/setjmp.h" 2 3 4 typedef long int __jmp_buf[8]; # 30 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 31 "/usr/include/pthread.h" 2 3 4 enum { PTHREAD_CREATE_JOINABLE, PTHREAD_CREATE_DETACHED }; enum { PTHREAD_MUTEX_TIMED_NP, PTHREAD_MUTEX_RECURSIVE_NP, PTHREAD_MUTEX_ERRORCHECK_NP, PTHREAD_MUTEX_ADAPTIVE_NP , PTHREAD_MUTEX_NORMAL = PTHREAD_MUTEX_TIMED_NP, PTHREAD_MUTEX_RECURSIVE = PTHREAD_MUTEX_RECURSIVE_NP, PTHREAD_MUTEX_ERRORCHECK = PTHREAD_MUTEX_ERRORCHECK_NP, PTHREAD_MUTEX_DEFAULT = PTHREAD_MUTEX_NORMAL }; enum { PTHREAD_MUTEX_STALLED, PTHREAD_MUTEX_STALLED_NP = PTHREAD_MUTEX_STALLED, PTHREAD_MUTEX_ROBUST, PTHREAD_MUTEX_ROBUST_NP = PTHREAD_MUTEX_ROBUST }; # 115 "/usr/include/pthread.h" 3 4 enum { PTHREAD_RWLOCK_PREFER_READER_NP, PTHREAD_RWLOCK_PREFER_WRITER_NP, PTHREAD_RWLOCK_PREFER_WRITER_NONRECURSIVE_NP, PTHREAD_RWLOCK_DEFAULT_NP = PTHREAD_RWLOCK_PREFER_READER_NP }; # 147 "/usr/include/pthread.h" 3 4 enum { PTHREAD_INHERIT_SCHED, PTHREAD_EXPLICIT_SCHED }; enum { PTHREAD_SCOPE_SYSTEM, PTHREAD_SCOPE_PROCESS }; enum { PTHREAD_PROCESS_PRIVATE, PTHREAD_PROCESS_SHARED }; # 182 "/usr/include/pthread.h" 3 4 struct _pthread_cleanup_buffer { void (*__routine) (void *); void *__arg; int __canceltype; struct _pthread_cleanup_buffer *__prev; }; enum { PTHREAD_CANCEL_ENABLE, PTHREAD_CANCEL_DISABLE }; enum { PTHREAD_CANCEL_DEFERRED, PTHREAD_CANCEL_ASYNCHRONOUS }; # 220 "/usr/include/pthread.h" 3 4 extern int pthread_create (pthread_t *__restrict __newthread, __const pthread_attr_t *__restrict __attr, void *(*__start_routine) (void *), void *__restrict __arg) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 3))); extern void pthread_exit (void *__retval) __attribute__ ((__noreturn__)); extern int pthread_join (pthread_t __th, void **__thread_return); # 263 "/usr/include/pthread.h" 3 4 extern int pthread_detach (pthread_t __th) __attribute__ ((__nothrow__)); extern pthread_t pthread_self (void) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int pthread_equal (pthread_t __thread1, pthread_t __thread2) __attribute__ ((__nothrow__)); extern int pthread_attr_init (pthread_attr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_destroy (pthread_attr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getdetachstate (__const pthread_attr_t *__attr, int *__detachstate) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setdetachstate (pthread_attr_t *__attr, int __detachstate) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getguardsize (__const pthread_attr_t *__attr, size_t *__guardsize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setguardsize (pthread_attr_t *__attr, size_t __guardsize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getschedparam (__const pthread_attr_t *__restrict __attr, struct sched_param *__restrict __param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setschedparam (pthread_attr_t *__restrict __attr, __const struct sched_param *__restrict __param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_getschedpolicy (__const pthread_attr_t *__restrict __attr, int *__restrict __policy) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setschedpolicy (pthread_attr_t *__attr, int __policy) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getinheritsched (__const pthread_attr_t *__restrict __attr, int *__restrict __inherit) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setinheritsched (pthread_attr_t *__attr, int __inherit) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getscope (__const pthread_attr_t *__restrict __attr, int *__restrict __scope) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setscope (pthread_attr_t *__attr, int __scope) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getstackaddr (__const pthread_attr_t *__restrict __attr, void **__restrict __stackaddr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) __attribute__ ((__deprecated__)); extern int pthread_attr_setstackaddr (pthread_attr_t *__attr, void *__stackaddr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) __attribute__ ((__deprecated__)); extern int pthread_attr_getstacksize (__const pthread_attr_t *__restrict __attr, size_t *__restrict __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setstacksize (pthread_attr_t *__attr, size_t __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getstack (__const pthread_attr_t *__restrict __attr, void **__restrict __stackaddr, size_t *__restrict __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2, 3))); extern int pthread_attr_setstack (pthread_attr_t *__attr, void *__stackaddr, size_t __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 413 "/usr/include/pthread.h" 3 4 extern int pthread_setschedparam (pthread_t __target_thread, int __policy, __const struct sched_param *__param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))); extern int pthread_getschedparam (pthread_t __target_thread, int *__restrict __policy, struct sched_param *__restrict __param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern int pthread_setschedprio (pthread_t __target_thread, int __prio) __attribute__ ((__nothrow__)); # 478 "/usr/include/pthread.h" 3 4 extern int pthread_once (pthread_once_t *__once_control, void (*__init_routine) (void)) __attribute__ ((__nonnull__ (1, 2))); # 490 "/usr/include/pthread.h" 3 4 extern int pthread_setcancelstate (int __state, int *__oldstate); extern int pthread_setcanceltype (int __type, int *__oldtype); extern int pthread_cancel (pthread_t __th); extern void pthread_testcancel (void); typedef struct { struct { __jmp_buf __cancel_jmp_buf; int __mask_was_saved; } __cancel_jmp_buf[1]; void *__pad[4]; } __pthread_unwind_buf_t __attribute__ ((__aligned__)); # 524 "/usr/include/pthread.h" 3 4 struct __pthread_cleanup_frame { void (*__cancel_routine) (void *); void *__cancel_arg; int __do_it; int __cancel_type; }; # 664 "/usr/include/pthread.h" 3 4 extern void __pthread_register_cancel (__pthread_unwind_buf_t *__buf) ; # 676 "/usr/include/pthread.h" 3 4 extern void __pthread_unregister_cancel (__pthread_unwind_buf_t *__buf) ; # 717 "/usr/include/pthread.h" 3 4 extern void __pthread_unwind_next (__pthread_unwind_buf_t *__buf) __attribute__ ((__noreturn__)) __attribute__ ((__weak__)) ; struct __jmp_buf_tag; extern int __sigsetjmp (struct __jmp_buf_tag *__env, int __savemask) __attribute__ ((__nothrow__)); extern int pthread_mutex_init (pthread_mutex_t *__mutex, __const pthread_mutexattr_t *__mutexattr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_destroy (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_trylock (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_lock (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_timedlock (pthread_mutex_t *__restrict __mutex, __const struct timespec *__restrict __abstime) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutex_unlock (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_getprioceiling (__const pthread_mutex_t * __restrict __mutex, int *__restrict __prioceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutex_setprioceiling (pthread_mutex_t *__restrict __mutex, int __prioceiling, int *__restrict __old_ceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 3))); extern int pthread_mutex_consistent (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 790 "/usr/include/pthread.h" 3 4 extern int pthread_mutexattr_init (pthread_mutexattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_destroy (pthread_mutexattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getpshared (__const pthread_mutexattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setpshared (pthread_mutexattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_gettype (__const pthread_mutexattr_t *__restrict __attr, int *__restrict __kind) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_settype (pthread_mutexattr_t *__attr, int __kind) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getprotocol (__const pthread_mutexattr_t * __restrict __attr, int *__restrict __protocol) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setprotocol (pthread_mutexattr_t *__attr, int __protocol) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getprioceiling (__const pthread_mutexattr_t * __restrict __attr, int *__restrict __prioceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setprioceiling (pthread_mutexattr_t *__attr, int __prioceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getrobust (__const pthread_mutexattr_t *__attr, int *__robustness) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setrobust (pthread_mutexattr_t *__attr, int __robustness) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 872 "/usr/include/pthread.h" 3 4 extern int pthread_rwlock_init (pthread_rwlock_t *__restrict __rwlock, __const pthread_rwlockattr_t *__restrict __attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_destroy (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_rdlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_tryrdlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_timedrdlock (pthread_rwlock_t *__restrict __rwlock, __const struct timespec *__restrict __abstime) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlock_wrlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_trywrlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_timedwrlock (pthread_rwlock_t *__restrict __rwlock, __const struct timespec *__restrict __abstime) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlock_unlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_init (pthread_rwlockattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_destroy (pthread_rwlockattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_getpshared (__const pthread_rwlockattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlockattr_setpshared (pthread_rwlockattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_getkind_np (__const pthread_rwlockattr_t * __restrict __attr, int *__restrict __pref) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlockattr_setkind_np (pthread_rwlockattr_t *__attr, int __pref) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_init (pthread_cond_t *__restrict __cond, __const pthread_condattr_t *__restrict __cond_attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_destroy (pthread_cond_t *__cond) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_signal (pthread_cond_t *__cond) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_broadcast (pthread_cond_t *__cond) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_wait (pthread_cond_t *__restrict __cond, pthread_mutex_t *__restrict __mutex) __attribute__ ((__nonnull__ (1, 2))); # 984 "/usr/include/pthread.h" 3 4 extern int pthread_cond_timedwait (pthread_cond_t *__restrict __cond, pthread_mutex_t *__restrict __mutex, __const struct timespec *__restrict __abstime) __attribute__ ((__nonnull__ (1, 2, 3))); extern int pthread_condattr_init (pthread_condattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_condattr_destroy (pthread_condattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_condattr_getpshared (__const pthread_condattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_condattr_setpshared (pthread_condattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_condattr_getclock (__const pthread_condattr_t * __restrict __attr, __clockid_t *__restrict __clock_id) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_condattr_setclock (pthread_condattr_t *__attr, __clockid_t __clock_id) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 1028 "/usr/include/pthread.h" 3 4 extern int pthread_spin_init (pthread_spinlock_t *__lock, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_destroy (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_lock (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_trylock (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_unlock (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrier_init (pthread_barrier_t *__restrict __barrier, __const pthread_barrierattr_t *__restrict __attr, unsigned int __count) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrier_destroy (pthread_barrier_t *__barrier) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrier_wait (pthread_barrier_t *__barrier) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrierattr_init (pthread_barrierattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrierattr_destroy (pthread_barrierattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrierattr_getpshared (__const pthread_barrierattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_barrierattr_setpshared (pthread_barrierattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 1095 "/usr/include/pthread.h" 3 4 extern int pthread_key_create (pthread_key_t *__key, void (*__destr_function) (void *)) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_key_delete (pthread_key_t __key) __attribute__ ((__nothrow__)); extern void *pthread_getspecific (pthread_key_t __key) __attribute__ ((__nothrow__)); extern int pthread_setspecific (pthread_key_t __key, __const void *__pointer) __attribute__ ((__nothrow__)) ; extern int pthread_getcpuclockid (pthread_t __thread_id, __clockid_t *__clock_id) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 1129 "/usr/include/pthread.h" 3 4 extern int pthread_atfork (void (*__prepare) (void), void (*__parent) (void), void (*__child) (void)) __attribute__ ((__nothrow__)); # 1143 "/usr/include/pthread.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PTHREAD_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: setjmp.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/setjmp.h" 1 3 4 # 26 "/usr/include/setjmp.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/setjmp.h" 2 3 4 # 1 "/usr/include/bits/setjmp.h" 1 3 4 # 27 "/usr/include/bits/setjmp.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 28 "/usr/include/bits/setjmp.h" 2 3 4 typedef long int __jmp_buf[8]; # 31 "/usr/include/setjmp.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 32 "/usr/include/setjmp.h" 2 3 4 struct __jmp_buf_tag { __jmp_buf __jmpbuf; int __mask_was_saved; __sigset_t __saved_mask; }; typedef struct __jmp_buf_tag jmp_buf[1]; extern int setjmp (jmp_buf __env) __attribute__ ((__nothrow__)); extern int __sigsetjmp (struct __jmp_buf_tag __env[1], int __savemask) __attribute__ ((__nothrow__)); extern int _setjmp (struct __jmp_buf_tag __env[1]) __attribute__ ((__nothrow__)); # 78 "/usr/include/setjmp.h" 3 4 extern void longjmp (struct __jmp_buf_tag __env[1], int __val) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern void _longjmp (struct __jmp_buf_tag __env[1], int __val) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); typedef struct __jmp_buf_tag sigjmp_buf[1]; # 110 "/usr/include/setjmp.h" 3 4 extern void siglongjmp (sigjmp_buf __env, int __val) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); # 120 "/usr/include/setjmp.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SETJMP_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/utsname.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/utsname.h" 1 3 4 # 26 "/usr/include/sys/utsname.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/sys/utsname.h" 2 3 4 # 1 "/usr/include/bits/utsname.h" 1 3 4 # 31 "/usr/include/sys/utsname.h" 2 3 4 # 49 "/usr/include/sys/utsname.h" 3 4 struct utsname { char sysname[65]; char nodename[65]; char release[65]; char version[65]; char machine[65]; char __domainname[65]; }; # 82 "/usr/include/sys/utsname.h" 3 4 extern int uname (struct utsname *__name) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_UTSNAME_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: machine/endian.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: limits.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 34 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 1 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 168 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/usr/include/limits.h" 1 3 4 # 27 "/usr/include/limits.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/limits.h" 2 3 4 # 145 "/usr/include/limits.h" 3 4 # 1 "/usr/include/bits/posix1_lim.h" 1 3 4 # 157 "/usr/include/bits/posix1_lim.h" 3 4 # 1 "/usr/include/bits/local_lim.h" 1 3 4 # 39 "/usr/include/bits/local_lim.h" 3 4 # 1 "/usr/include/linux/limits.h" 1 3 4 # 40 "/usr/include/bits/local_lim.h" 2 3 4 # 158 "/usr/include/bits/posix1_lim.h" 2 3 4 # 146 "/usr/include/limits.h" 2 3 4 # 1 "/usr/include/bits/posix2_lim.h" 1 3 4 # 150 "/usr/include/limits.h" 2 3 4 # 169 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 8 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 2 3 4 # 35 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_LIMITS_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: fcntl.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/fcntl.h" 1 3 4 # 27 "/usr/include/fcntl.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/fcntl.h" 2 3 4 # 1 "/usr/include/bits/fcntl.h" 1 3 4 # 25 "/usr/include/bits/fcntl.h" 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 26 "/usr/include/bits/fcntl.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 27 "/usr/include/bits/fcntl.h" 2 3 4 # 165 "/usr/include/bits/fcntl.h" 3 4 struct flock { short int l_type; short int l_whence; __off_t l_start; __off_t l_len; __pid_t l_pid; }; # 250 "/usr/include/bits/fcntl.h" 3 4 # 295 "/usr/include/bits/fcntl.h" 3 4 # 35 "/usr/include/fcntl.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 41 "/usr/include/fcntl.h" 2 3 4 # 1 "/usr/include/bits/stat.h" 1 3 4 # 46 "/usr/include/bits/stat.h" 3 4 struct stat { __dev_t st_dev; __ino_t st_ino; __nlink_t st_nlink; __mode_t st_mode; __uid_t st_uid; __gid_t st_gid; int __pad0; __dev_t st_rdev; __off_t st_size; __blksize_t st_blksize; __blkcnt_t st_blocks; # 91 "/usr/include/bits/stat.h" 3 4 struct timespec st_atim; struct timespec st_mtim; struct timespec st_ctim; # 106 "/usr/include/bits/stat.h" 3 4 long int __unused[3]; # 115 "/usr/include/bits/stat.h" 3 4 }; # 42 "/usr/include/fcntl.h" 2 3 4 # 122 "/usr/include/fcntl.h" 3 4 extern int fcntl (int __fd, int __cmd, ...); # 131 "/usr/include/fcntl.h" 3 4 extern int open (__const char *__file, int __oflag, ...) __attribute__ ((__nonnull__ (1))); # 155 "/usr/include/fcntl.h" 3 4 extern int openat (int __fd, __const char *__file, int __oflag, ...) __attribute__ ((__nonnull__ (2))); # 177 "/usr/include/fcntl.h" 3 4 extern int creat (__const char *__file, __mode_t __mode) __attribute__ ((__nonnull__ (1))); # 206 "/usr/include/fcntl.h" 3 4 extern int lockf (int __fd, int __cmd, __off_t __len); # 223 "/usr/include/fcntl.h" 3 4 extern int posix_fadvise (int __fd, __off_t __offset, __off_t __len, int __advise) __attribute__ ((__nothrow__)); # 245 "/usr/include/fcntl.h" 3 4 extern int posix_fallocate (int __fd, __off_t __offset, __off_t __len); # 267 "/usr/include/fcntl.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FCNTL_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: string.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/string.h" 1 3 4 # 27 "/usr/include/string.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/string.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 35 "/usr/include/string.h" 2 3 4 extern void *memcpy (void *__restrict __dest, __const void *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memmove (void *__dest, __const void *__src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memccpy (void *__restrict __dest, __const void *__restrict __src, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memset (void *__s, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int memcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 95 "/usr/include/string.h" 3 4 extern void *memchr (__const void *__s, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 126 "/usr/include/string.h" 3 4 extern char *strcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strcat (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strncat (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int strcmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strncmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strcoll (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern size_t strxfrm (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 163 "/usr/include/string.h" 2 3 4 extern int strcoll_l (__const char *__s1, __const char *__s2, __locale_t __l) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2, 3))); extern size_t strxfrm_l (char *__dest, __const char *__src, size_t __n, __locale_t __l) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern char *strdup (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) __attribute__ ((__nonnull__ (1))); extern char *strndup (__const char *__string, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) __attribute__ ((__nonnull__ (1))); # 210 "/usr/include/string.h" 3 4 # 235 "/usr/include/string.h" 3 4 extern char *strchr (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 262 "/usr/include/string.h" 3 4 extern char *strrchr (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 281 "/usr/include/string.h" 3 4 extern size_t strcspn (__const char *__s, __const char *__reject) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern size_t strspn (__const char *__s, __const char *__accept) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 314 "/usr/include/string.h" 3 4 extern char *strpbrk (__const char *__s, __const char *__accept) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 342 "/usr/include/string.h" 3 4 extern char *strstr (__const char *__haystack, __const char *__needle) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strtok (char *__restrict __s, __const char *__restrict __delim) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *__strtok_r (char *__restrict __s, __const char *__restrict __delim, char **__restrict __save_ptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern char *strtok_r (char *__restrict __s, __const char *__restrict __delim, char **__restrict __save_ptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); # 397 "/usr/include/string.h" 3 4 extern size_t strlen (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern size_t strnlen (__const char *__string, size_t __maxlen) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern char *strerror (int __errnum) __attribute__ ((__nothrow__)); # 427 "/usr/include/string.h" 3 4 extern int strerror_r (int __errnum, char *__buf, size_t __buflen) __asm__ ("" "__xpg_strerror_r") __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 445 "/usr/include/string.h" 3 4 extern char *strerror_l (int __errnum, __locale_t __l) __attribute__ ((__nothrow__)); extern void __bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void bcopy (__const void *__src, void *__dest, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int bcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 489 "/usr/include/string.h" 3 4 extern char *index (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 517 "/usr/include/string.h" 3 4 extern char *rindex (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern int ffs (int __i) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 536 "/usr/include/string.h" 3 4 extern int strcasecmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strncasecmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 559 "/usr/include/string.h" 3 4 extern char *strsep (char **__restrict __stringp, __const char *__restrict __delim) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strsignal (int __sig) __attribute__ ((__nothrow__)); extern char *__stpcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *stpcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *__stpncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *stpncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); # 646 "/usr/include/string.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRING_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/times.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/times.h" 1 3 4 # 26 "/usr/include/sys/times.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/sys/times.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 56 "/usr/include/time.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 57 "/usr/include/time.h" 2 3 4 typedef __clock_t clock_t; # 30 "/usr/include/sys/times.h" 2 3 4 struct tms { clock_t tms_utime; clock_t tms_stime; clock_t tms_cutime; clock_t tms_cstime; }; extern clock_t times (struct tms *__buffer) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIMES_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: io.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: stdint.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 26 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 37 "/usr/include/stdint.h" 3 4 typedef signed char int8_t; typedef short int int16_t; typedef int int32_t; typedef long int int64_t; typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDINT_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: pwd.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/pwd.h" 1 3 4 # 26 "/usr/include/pwd.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/pwd.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/pwd.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 34 "/usr/include/pwd.h" 2 3 4 typedef __gid_t gid_t; typedef __uid_t uid_t; struct passwd { char *pw_name; char *pw_passwd; __uid_t pw_uid; __gid_t pw_gid; char *pw_gecos; char *pw_dir; char *pw_shell; }; # 1 "/usr/include/stdio.h" 1 3 4 # 45 "/usr/include/stdio.h" 3 4 struct _IO_FILE; typedef struct _IO_FILE FILE; # 65 "/usr/include/pwd.h" 2 3 4 # 73 "/usr/include/pwd.h" 3 4 extern void setpwent (void); extern void endpwent (void); extern struct passwd *getpwent (void); # 95 "/usr/include/pwd.h" 3 4 extern struct passwd *fgetpwent (FILE *__stream); extern int putpwent (__const struct passwd *__restrict __p, FILE *__restrict __f); extern struct passwd *getpwuid (__uid_t __uid); extern struct passwd *getpwnam (__const char *__name); # 140 "/usr/include/pwd.h" 3 4 extern int getpwent_r (struct passwd *__restrict __resultbuf, char *__restrict __buffer, size_t __buflen, struct passwd **__restrict __result); extern int getpwuid_r (__uid_t __uid, struct passwd *__restrict __resultbuf, char *__restrict __buffer, size_t __buflen, struct passwd **__restrict __result); extern int getpwnam_r (__const char *__restrict __name, struct passwd *__restrict __resultbuf, char *__restrict __buffer, size_t __buflen, struct passwd **__restrict __result); # 164 "/usr/include/pwd.h" 3 4 extern int fgetpwent_r (FILE *__restrict __stream, struct passwd *__restrict __resultbuf, char *__restrict __buffer, size_t __buflen, struct passwd **__restrict __result); # 184 "/usr/include/pwd.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PWD_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: float.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/float.h" 1 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/param.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/param.h" 1 3 4 # 26 "/usr/include/sys/param.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 34 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 1 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 168 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/usr/include/limits.h" 1 3 4 # 27 "/usr/include/limits.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/limits.h" 2 3 4 # 145 "/usr/include/limits.h" 3 4 # 1 "/usr/include/bits/posix1_lim.h" 1 3 4 # 157 "/usr/include/bits/posix1_lim.h" 3 4 # 1 "/usr/include/bits/local_lim.h" 1 3 4 # 39 "/usr/include/bits/local_lim.h" 3 4 # 1 "/usr/include/linux/limits.h" 1 3 4 # 40 "/usr/include/bits/local_lim.h" 2 3 4 # 158 "/usr/include/bits/posix1_lim.h" 2 3 4 # 146 "/usr/include/limits.h" 2 3 4 # 1 "/usr/include/bits/posix2_lim.h" 1 3 4 # 150 "/usr/include/limits.h" 2 3 4 # 169 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 8 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 2 3 4 # 35 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 27 "/usr/include/sys/param.h" 2 3 4 # 1 "/usr/include/linux/param.h" 1 3 4 # 1 "/usr/include/asm/param.h" 1 3 4 # 1 "/usr/include/asm-generic/param.h" 1 3 4 # 1 "/usr/include/asm/param.h" 2 3 4 # 5 "/usr/include/linux/param.h" 2 3 4 # 29 "/usr/include/sys/param.h" 2 3 4 # 52 "/usr/include/sys/param.h" 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 53 "/usr/include/sys/param.h" 2 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PARAM_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: netdb.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/netdb.h" 1 3 4 # 26 "/usr/include/netdb.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/netdb.h" 2 3 4 # 1 "/usr/include/netinet/in.h" 1 3 4 # 24 "/usr/include/netinet/in.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 27 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 37 "/usr/include/stdint.h" 3 4 typedef signed char int8_t; typedef short int int16_t; typedef int int32_t; typedef long int int64_t; typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 25 "/usr/include/netinet/in.h" 2 3 4 # 1 "/usr/include/sys/socket.h" 1 3 4 # 26 "/usr/include/sys/socket.h" 3 4 # 1 "/usr/include/sys/uio.h" 1 3 4 # 24 "/usr/include/sys/uio.h" 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 201 "/usr/include/sys/types.h" 3 4 typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 25 "/usr/include/sys/uio.h" 2 3 4 # 1 "/usr/include/bits/uio.h" 1 3 4 # 44 "/usr/include/bits/uio.h" 3 4 struct iovec { void *iov_base; size_t iov_len; }; # 30 "/usr/include/sys/uio.h" 2 3 4 # 40 "/usr/include/sys/uio.h" 3 4 extern ssize_t readv (int __fd, __const struct iovec *__iovec, int __count) ; # 51 "/usr/include/sys/uio.h" 3 4 extern ssize_t writev (int __fd, __const struct iovec *__iovec, int __count) ; # 66 "/usr/include/sys/uio.h" 3 4 extern ssize_t preadv (int __fd, __const struct iovec *__iovec, int __count, __off_t __offset) ; # 78 "/usr/include/sys/uio.h" 3 4 extern ssize_t pwritev (int __fd, __const struct iovec *__iovec, int __count, __off_t __offset) ; # 121 "/usr/include/sys/uio.h" 3 4 # 29 "/usr/include/sys/socket.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 31 "/usr/include/sys/socket.h" 2 3 4 # 40 "/usr/include/sys/socket.h" 3 4 # 1 "/usr/include/bits/socket.h" 1 3 4 # 29 "/usr/include/bits/socket.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 30 "/usr/include/bits/socket.h" 2 3 4 typedef __socklen_t socklen_t; enum __socket_type { SOCK_STREAM = 1, SOCK_DGRAM = 2, SOCK_RAW = 3, SOCK_RDM = 4, SOCK_SEQPACKET = 5, SOCK_DCCP = 6, SOCK_PACKET = 10, SOCK_CLOEXEC = 02000000, SOCK_NONBLOCK = 04000 }; # 171 "/usr/include/bits/socket.h" 3 4 # 1 "/usr/include/bits/sockaddr.h" 1 3 4 # 29 "/usr/include/bits/sockaddr.h" 3 4 typedef unsigned short int sa_family_t; # 172 "/usr/include/bits/socket.h" 2 3 4 struct sockaddr { sa_family_t sa_family; char sa_data[14]; }; # 187 "/usr/include/bits/socket.h" 3 4 struct sockaddr_storage { sa_family_t ss_family; unsigned long int __ss_align; char __ss_padding[(128 - (2 * sizeof (unsigned long int)))]; }; enum { MSG_OOB = 0x01, MSG_PEEK = 0x02, MSG_DONTROUTE = 0x04, MSG_CTRUNC = 0x08, MSG_PROXY = 0x10, MSG_TRUNC = 0x20, MSG_DONTWAIT = 0x40, MSG_EOR = 0x80, MSG_WAITALL = 0x100, MSG_FIN = 0x200, MSG_SYN = 0x400, MSG_CONFIRM = 0x800, MSG_RST = 0x1000, MSG_ERRQUEUE = 0x2000, MSG_NOSIGNAL = 0x4000, MSG_MORE = 0x8000, MSG_WAITFORONE = 0x10000, MSG_CMSG_CLOEXEC = 0x40000000 }; struct msghdr { void *msg_name; socklen_t msg_namelen; struct iovec *msg_iov; size_t msg_iovlen; void *msg_control; size_t msg_controllen; int msg_flags; }; # 274 "/usr/include/bits/socket.h" 3 4 struct cmsghdr { size_t cmsg_len; int cmsg_level; int cmsg_type; __extension__ unsigned char __cmsg_data []; }; # 304 "/usr/include/bits/socket.h" 3 4 extern struct cmsghdr *__cmsg_nxthdr (struct msghdr *__mhdr, struct cmsghdr *__cmsg) __attribute__ ((__nothrow__)); # 331 "/usr/include/bits/socket.h" 3 4 enum { SCM_RIGHTS = 0x01 }; # 377 "/usr/include/bits/socket.h" 3 4 # 1 "/usr/include/asm/socket.h" 1 3 4 # 1 "/usr/include/asm-generic/socket.h" 1 3 4 # 1 "/usr/include/asm/sockios.h" 1 3 4 # 1 "/usr/include/asm-generic/sockios.h" 1 3 4 # 1 "/usr/include/asm/sockios.h" 2 3 4 # 5 "/usr/include/asm-generic/socket.h" 2 3 4 # 1 "/usr/include/asm/socket.h" 2 3 4 # 378 "/usr/include/bits/socket.h" 2 3 4 # 411 "/usr/include/bits/socket.h" 3 4 struct linger { int l_onoff; int l_linger; }; extern int recvmmsg (int __fd, struct mmsghdr *__vmessages, unsigned int __vlen, int __flags, __const struct timespec *__tmo); # 41 "/usr/include/sys/socket.h" 2 3 4 struct osockaddr { unsigned short int sa_family; unsigned char sa_data[14]; }; enum { SHUT_RD = 0, SHUT_WR, SHUT_RDWR }; # 105 "/usr/include/sys/socket.h" 3 4 extern int socket (int __domain, int __type, int __protocol) __attribute__ ((__nothrow__)); extern int socketpair (int __domain, int __type, int __protocol, int __fds[2]) __attribute__ ((__nothrow__)); extern int bind (int __fd, __const struct sockaddr * __addr, socklen_t __len) __attribute__ ((__nothrow__)); extern int getsockname (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __len) __attribute__ ((__nothrow__)); # 129 "/usr/include/sys/socket.h" 3 4 extern int connect (int __fd, __const struct sockaddr * __addr, socklen_t __len); extern int getpeername (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __len) __attribute__ ((__nothrow__)); extern ssize_t send (int __fd, __const void *__buf, size_t __n, int __flags); extern ssize_t recv (int __fd, void *__buf, size_t __n, int __flags); extern ssize_t sendto (int __fd, __const void *__buf, size_t __n, int __flags, __const struct sockaddr * __addr, socklen_t __addr_len); # 166 "/usr/include/sys/socket.h" 3 4 extern ssize_t recvfrom (int __fd, void *__restrict __buf, size_t __n, int __flags, struct sockaddr *__restrict __addr, socklen_t *__restrict __addr_len); extern ssize_t sendmsg (int __fd, __const struct msghdr *__message, int __flags); extern ssize_t recvmsg (int __fd, struct msghdr *__message, int __flags); extern int getsockopt (int __fd, int __level, int __optname, void *__restrict __optval, socklen_t *__restrict __optlen) __attribute__ ((__nothrow__)); extern int setsockopt (int __fd, int __level, int __optname, __const void *__optval, socklen_t __optlen) __attribute__ ((__nothrow__)); extern int listen (int __fd, int __n) __attribute__ ((__nothrow__)); # 214 "/usr/include/sys/socket.h" 3 4 extern int accept (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __addr_len); # 232 "/usr/include/sys/socket.h" 3 4 extern int shutdown (int __fd, int __how) __attribute__ ((__nothrow__)); extern int sockatmark (int __fd) __attribute__ ((__nothrow__)); extern int isfdtype (int __fd, int __fdtype) __attribute__ ((__nothrow__)); # 254 "/usr/include/sys/socket.h" 3 4 # 26 "/usr/include/netinet/in.h" 2 3 4 typedef uint32_t in_addr_t; struct in_addr { in_addr_t s_addr; }; # 1 "/usr/include/bits/in.h" 1 3 4 # 111 "/usr/include/bits/in.h" 3 4 struct ip_opts { struct in_addr ip_dst; char ip_opts[40]; }; struct ip_mreqn { struct in_addr imr_multiaddr; struct in_addr imr_address; int imr_ifindex; }; struct in_pktinfo { int ipi_ifindex; struct in_addr ipi_spec_dst; struct in_addr ipi_addr; }; # 40 "/usr/include/netinet/in.h" 2 3 4 enum { IPPROTO_IP = 0, IPPROTO_ICMP = 1, IPPROTO_IGMP = 2, IPPROTO_IPIP = 4, IPPROTO_TCP = 6, IPPROTO_EGP = 8, IPPROTO_PUP = 12, IPPROTO_UDP = 17, IPPROTO_IDP = 22, IPPROTO_TP = 29, IPPROTO_DCCP = 33, IPPROTO_IPV6 = 41, IPPROTO_RSVP = 46, IPPROTO_GRE = 47, IPPROTO_ESP = 50, IPPROTO_AH = 51, IPPROTO_MTP = 92, IPPROTO_BEETPH = 94, IPPROTO_ENCAP = 98, IPPROTO_PIM = 103, IPPROTO_COMP = 108, IPPROTO_SCTP = 132, IPPROTO_UDPLITE = 136, IPPROTO_RAW = 255, IPPROTO_MAX }; enum { IPPROTO_HOPOPTS = 0, IPPROTO_ROUTING = 43, IPPROTO_FRAGMENT = 44, IPPROTO_ICMPV6 = 58, IPPROTO_NONE = 59, IPPROTO_DSTOPTS = 60, IPPROTO_MH = 135, }; typedef uint16_t in_port_t; enum { IPPORT_ECHO = 7, IPPORT_DISCARD = 9, IPPORT_SYSTAT = 11, IPPORT_DAYTIME = 13, IPPORT_NETSTAT = 15, IPPORT_FTP = 21, IPPORT_TELNET = 23, IPPORT_SMTP = 25, IPPORT_TIMESERVER = 37, IPPORT_NAMESERVER = 42, IPPORT_WHOIS = 43, IPPORT_MTP = 57, IPPORT_TFTP = 69, IPPORT_RJE = 77, IPPORT_FINGER = 79, IPPORT_TTYLINK = 87, IPPORT_SUPDUP = 95, IPPORT_EXECSERVER = 512, IPPORT_LOGINSERVER = 513, IPPORT_CMDSERVER = 514, IPPORT_EFSSERVER = 520, IPPORT_BIFFUDP = 512, IPPORT_WHOSERVER = 513, IPPORT_ROUTESERVER = 520, IPPORT_RESERVED = 1024, IPPORT_USERRESERVED = 5000 }; # 211 "/usr/include/netinet/in.h" 3 4 struct in6_addr { union { uint8_t __u6_addr8[16]; uint16_t __u6_addr16[8]; uint32_t __u6_addr32[4]; } __in6_u; }; extern const struct in6_addr in6addr_any; extern const struct in6_addr in6addr_loopback; # 239 "/usr/include/netinet/in.h" 3 4 struct sockaddr_in { sa_family_t sin_family; in_port_t sin_port; struct in_addr sin_addr; unsigned char sin_zero[sizeof (struct sockaddr) - (sizeof (unsigned short int)) - sizeof (in_port_t) - sizeof (struct in_addr)]; }; struct sockaddr_in6 { sa_family_t sin6_family; in_port_t sin6_port; uint32_t sin6_flowinfo; struct in6_addr sin6_addr; uint32_t sin6_scope_id; }; struct ip_mreq { struct in_addr imr_multiaddr; struct in_addr imr_interface; }; struct ip_mreq_source { struct in_addr imr_multiaddr; struct in_addr imr_interface; struct in_addr imr_sourceaddr; }; struct ipv6_mreq { struct in6_addr ipv6mr_multiaddr; unsigned int ipv6mr_interface; }; struct group_req { uint32_t gr_interface; struct sockaddr_storage gr_group; }; struct group_source_req { uint32_t gsr_interface; struct sockaddr_storage gsr_group; struct sockaddr_storage gsr_source; }; struct ip_msfilter { struct in_addr imsf_multiaddr; struct in_addr imsf_interface; uint32_t imsf_fmode; uint32_t imsf_numsrc; struct in_addr imsf_slist[1]; }; struct group_filter { uint32_t gf_interface; struct sockaddr_storage gf_group; uint32_t gf_fmode; uint32_t gf_numsrc; struct sockaddr_storage gf_slist[1]; }; # 376 "/usr/include/netinet/in.h" 3 4 extern uint32_t ntohl (uint32_t __netlong) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern uint16_t ntohs (uint16_t __netshort) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern uint32_t htonl (uint32_t __hostlong) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern uint16_t htons (uint16_t __hostshort) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 388 "/usr/include/netinet/in.h" 2 3 4 # 451 "/usr/include/netinet/in.h" 3 4 extern int bindresvport (int __sockfd, struct sockaddr_in *__sock_in) __attribute__ ((__nothrow__)); extern int bindresvport6 (int __sockfd, struct sockaddr_in6 *__sock_in) __attribute__ ((__nothrow__)); # 576 "/usr/include/netinet/in.h" 3 4 # 29 "/usr/include/netdb.h" 2 3 4 # 1 "/usr/include/rpc/netdb.h" 1 3 4 # 42 "/usr/include/rpc/netdb.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 43 "/usr/include/rpc/netdb.h" 2 3 4 struct rpcent { char *r_name; char **r_aliases; int r_number; }; extern void setrpcent (int __stayopen) __attribute__ ((__nothrow__)); extern void endrpcent (void) __attribute__ ((__nothrow__)); extern struct rpcent *getrpcbyname (__const char *__name) __attribute__ ((__nothrow__)); extern struct rpcent *getrpcbynumber (int __number) __attribute__ ((__nothrow__)); extern struct rpcent *getrpcent (void) __attribute__ ((__nothrow__)); extern int getrpcbyname_r (__const char *__name, struct rpcent *__result_buf, char *__buffer, size_t __buflen, struct rpcent **__result) __attribute__ ((__nothrow__)); extern int getrpcbynumber_r (int __number, struct rpcent *__result_buf, char *__buffer, size_t __buflen, struct rpcent **__result) __attribute__ ((__nothrow__)); extern int getrpcent_r (struct rpcent *__result_buf, char *__buffer, size_t __buflen, struct rpcent **__result) __attribute__ ((__nothrow__)); # 34 "/usr/include/netdb.h" 2 3 4 # 43 "/usr/include/netdb.h" 3 4 # 1 "/usr/include/bits/netdb.h" 1 3 4 # 27 "/usr/include/bits/netdb.h" 3 4 struct netent { char *n_name; char **n_aliases; int n_addrtype; uint32_t n_net; }; # 44 "/usr/include/netdb.h" 2 3 4 # 54 "/usr/include/netdb.h" 3 4 extern int *__h_errno_location (void) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 93 "/usr/include/netdb.h" 3 4 extern void herror (__const char *__str) __attribute__ ((__nothrow__)); extern __const char *hstrerror (int __err_num) __attribute__ ((__nothrow__)); struct hostent { char *h_name; char **h_aliases; int h_addrtype; int h_length; char **h_addr_list; }; extern void sethostent (int __stay_open); extern void endhostent (void); extern struct hostent *gethostent (void); extern struct hostent *gethostbyaddr (__const void *__addr, __socklen_t __len, int __type); extern struct hostent *gethostbyname (__const char *__name); # 156 "/usr/include/netdb.h" 3 4 extern struct hostent *gethostbyname2 (__const char *__name, int __af); # 168 "/usr/include/netdb.h" 3 4 extern int gethostent_r (struct hostent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct hostent **__restrict __result, int *__restrict __h_errnop); extern int gethostbyaddr_r (__const void *__restrict __addr, __socklen_t __len, int __type, struct hostent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct hostent **__restrict __result, int *__restrict __h_errnop); extern int gethostbyname_r (__const char *__restrict __name, struct hostent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct hostent **__restrict __result, int *__restrict __h_errnop); extern int gethostbyname2_r (__const char *__restrict __name, int __af, struct hostent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct hostent **__restrict __result, int *__restrict __h_errnop); # 199 "/usr/include/netdb.h" 3 4 extern void setnetent (int __stay_open); extern void endnetent (void); extern struct netent *getnetent (void); extern struct netent *getnetbyaddr (uint32_t __net, int __type); extern struct netent *getnetbyname (__const char *__name); # 238 "/usr/include/netdb.h" 3 4 extern int getnetent_r (struct netent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct netent **__restrict __result, int *__restrict __h_errnop); extern int getnetbyaddr_r (uint32_t __net, int __type, struct netent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct netent **__restrict __result, int *__restrict __h_errnop); extern int getnetbyname_r (__const char *__restrict __name, struct netent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct netent **__restrict __result, int *__restrict __h_errnop); struct servent { char *s_name; char **s_aliases; int s_port; char *s_proto; }; extern void setservent (int __stay_open); extern void endservent (void); extern struct servent *getservent (void); extern struct servent *getservbyname (__const char *__name, __const char *__proto); extern struct servent *getservbyport (int __port, __const char *__proto); # 310 "/usr/include/netdb.h" 3 4 extern int getservent_r (struct servent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct servent **__restrict __result); extern int getservbyname_r (__const char *__restrict __name, __const char *__restrict __proto, struct servent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct servent **__restrict __result); extern int getservbyport_r (int __port, __const char *__restrict __proto, struct servent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct servent **__restrict __result); struct protoent { char *p_name; char **p_aliases; int p_proto; }; extern void setprotoent (int __stay_open); extern void endprotoent (void); extern struct protoent *getprotoent (void); extern struct protoent *getprotobyname (__const char *__name); extern struct protoent *getprotobynumber (int __proto); # 376 "/usr/include/netdb.h" 3 4 extern int getprotoent_r (struct protoent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct protoent **__restrict __result); extern int getprotobyname_r (__const char *__restrict __name, struct protoent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct protoent **__restrict __result); extern int getprotobynumber_r (int __proto, struct protoent *__restrict __result_buf, char *__restrict __buf, size_t __buflen, struct protoent **__restrict __result); # 397 "/usr/include/netdb.h" 3 4 extern int setnetgrent (__const char *__netgroup); extern void endnetgrent (void); # 414 "/usr/include/netdb.h" 3 4 extern int getnetgrent (char **__restrict __hostp, char **__restrict __userp, char **__restrict __domainp); # 425 "/usr/include/netdb.h" 3 4 extern int innetgr (__const char *__netgroup, __const char *__host, __const char *__user, __const char *__domain); extern int getnetgrent_r (char **__restrict __hostp, char **__restrict __userp, char **__restrict __domainp, char *__restrict __buffer, size_t __buflen); # 453 "/usr/include/netdb.h" 3 4 extern int rcmd (char **__restrict __ahost, unsigned short int __rport, __const char *__restrict __locuser, __const char *__restrict __remuser, __const char *__restrict __cmd, int *__restrict __fd2p); # 465 "/usr/include/netdb.h" 3 4 extern int rcmd_af (char **__restrict __ahost, unsigned short int __rport, __const char *__restrict __locuser, __const char *__restrict __remuser, __const char *__restrict __cmd, int *__restrict __fd2p, sa_family_t __af); # 481 "/usr/include/netdb.h" 3 4 extern int rexec (char **__restrict __ahost, int __rport, __const char *__restrict __name, __const char *__restrict __pass, __const char *__restrict __cmd, int *__restrict __fd2p); # 493 "/usr/include/netdb.h" 3 4 extern int rexec_af (char **__restrict __ahost, int __rport, __const char *__restrict __name, __const char *__restrict __pass, __const char *__restrict __cmd, int *__restrict __fd2p, sa_family_t __af); # 507 "/usr/include/netdb.h" 3 4 extern int ruserok (__const char *__rhost, int __suser, __const char *__remuser, __const char *__locuser); # 517 "/usr/include/netdb.h" 3 4 extern int ruserok_af (__const char *__rhost, int __suser, __const char *__remuser, __const char *__locuser, sa_family_t __af); # 530 "/usr/include/netdb.h" 3 4 extern int iruserok (uint32_t __raddr, int __suser, __const char *__remuser, __const char *__locuser); # 541 "/usr/include/netdb.h" 3 4 extern int iruserok_af (__const void *__raddr, int __suser, __const char *__remuser, __const char *__locuser, sa_family_t __af); # 553 "/usr/include/netdb.h" 3 4 extern int rresvport (int *__alport); # 562 "/usr/include/netdb.h" 3 4 extern int rresvport_af (int *__alport, sa_family_t __af); struct addrinfo { int ai_flags; int ai_family; int ai_socktype; int ai_protocol; socklen_t ai_addrlen; struct sockaddr *ai_addr; char *ai_canonname; struct addrinfo *ai_next; }; # 664 "/usr/include/netdb.h" 3 4 extern int getaddrinfo (__const char *__restrict __name, __const char *__restrict __service, __const struct addrinfo *__restrict __req, struct addrinfo **__restrict __pai); extern void freeaddrinfo (struct addrinfo *__ai) __attribute__ ((__nothrow__)); extern __const char *gai_strerror (int __ecode) __attribute__ ((__nothrow__)); extern int getnameinfo (__const struct sockaddr *__restrict __sa, socklen_t __salen, char *__restrict __host, socklen_t __hostlen, char *__restrict __serv, socklen_t __servlen, unsigned int __flags); # 715 "/usr/include/netdb.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETDB_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: search.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/search.h" 1 3 4 # 23 "/usr/include/search.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/search.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 27 "/usr/include/search.h" 2 3 4 # 45 "/usr/include/search.h" 3 4 extern void insque (void *__elem, void *__prev) __attribute__ ((__nothrow__)); extern void remque (void *__elem) __attribute__ ((__nothrow__)); typedef int (*__compar_fn_t) (__const void *, __const void *); typedef enum { FIND, ENTER } ACTION; typedef struct entry { char *key; void *data; } ENTRY; struct _ENTRY; # 88 "/usr/include/search.h" 3 4 extern ENTRY *hsearch (ENTRY __item, ACTION __action) __attribute__ ((__nothrow__)); extern int hcreate (size_t __nel) __attribute__ ((__nothrow__)); extern void hdestroy (void) __attribute__ ((__nothrow__)); # 119 "/usr/include/search.h" 3 4 typedef enum { preorder, postorder, endorder, leaf } VISIT; extern void *tsearch (__const void *__key, void **__rootp, __compar_fn_t __compar); extern void *tfind (__const void *__key, void *__const *__rootp, __compar_fn_t __compar); extern void *tdelete (__const void *__restrict __key, void **__restrict __rootp, __compar_fn_t __compar); typedef void (*__action_fn_t) (__const void *__nodep, VISIT __value, int __level); extern void twalk (__const void *__root, __action_fn_t __action); # 165 "/usr/include/search.h" 3 4 extern void *lfind (__const void *__key, __const void *__base, size_t *__nmemb, size_t __size, __compar_fn_t __compar); extern void *lsearch (__const void *__key, void *__base, size_t *__nmemb, size_t __size, __compar_fn_t __compar); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SEARCH_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: mathimf.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:21: fatal error: mathimf.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:21: fatal error: mathimf.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:21: fatal error: mathimf.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/procfs.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/procfs.h" 1 3 4 # 31 "/usr/include/sys/procfs.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 32 "/usr/include/sys/procfs.h" 2 3 4 # 1 "/usr/include/sys/time.h" 1 3 4 # 25 "/usr/include/sys/time.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 26 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 28 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 30 "/usr/include/sys/time.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 32 "/usr/include/sys/time.h" 2 3 4 # 57 "/usr/include/sys/time.h" 3 4 struct timezone { int tz_minuteswest; int tz_dsttime; }; typedef struct timezone *__restrict __timezone_ptr_t; # 73 "/usr/include/sys/time.h" 3 4 extern int gettimeofday (struct timeval *__restrict __tv, __timezone_ptr_t __tz) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int settimeofday (__const struct timeval *__tv, __const struct timezone *__tz) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int adjtime (__const struct timeval *__delta, struct timeval *__olddelta) __attribute__ ((__nothrow__)); enum __itimer_which { ITIMER_REAL = 0, ITIMER_VIRTUAL = 1, ITIMER_PROF = 2 }; struct itimerval { struct timeval it_interval; struct timeval it_value; }; typedef int __itimer_which_t; extern int getitimer (__itimer_which_t __which, struct itimerval *__value) __attribute__ ((__nothrow__)); extern int setitimer (__itimer_which_t __which, __const struct itimerval *__restrict __new, struct itimerval *__restrict __old) __attribute__ ((__nothrow__)); extern int utimes (__const char *__file, __const struct timeval __tvp[2]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int lutimes (__const char *__file, __const struct timeval __tvp[2]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int futimes (int __fd, __const struct timeval __tvp[2]) __attribute__ ((__nothrow__)); # 191 "/usr/include/sys/time.h" 3 4 # 33 "/usr/include/sys/procfs.h" 2 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 34 "/usr/include/sys/procfs.h" 2 3 4 # 1 "/usr/include/sys/user.h" 1 3 4 # 26 "/usr/include/sys/user.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 27 "/usr/include/sys/user.h" 2 3 4 struct user_fpregs_struct { __uint16_t cwd; __uint16_t swd; __uint16_t ftw; __uint16_t fop; __uint64_t rip; __uint64_t rdp; __uint32_t mxcsr; __uint32_t mxcr_mask; __uint32_t st_space[32]; __uint32_t xmm_space[64]; __uint32_t padding[24]; }; struct user_regs_struct { unsigned long r15; unsigned long r14; unsigned long r13; unsigned long r12; unsigned long rbp; unsigned long rbx; unsigned long r11; unsigned long r10; unsigned long r9; unsigned long r8; unsigned long rax; unsigned long rcx; unsigned long rdx; unsigned long rsi; unsigned long rdi; unsigned long orig_rax; unsigned long rip; unsigned long cs; unsigned long eflags; unsigned long rsp; unsigned long ss; unsigned long fs_base; unsigned long gs_base; unsigned long ds; unsigned long es; unsigned long fs; unsigned long gs; }; struct user { struct user_regs_struct regs; int u_fpvalid; struct user_fpregs_struct i387; unsigned long int u_tsize; unsigned long int u_dsize; unsigned long int u_ssize; unsigned long start_code; unsigned long start_stack; long int signal; int reserved; struct user_regs_struct* u_ar0; struct user_fpregs_struct* u_fpstate; unsigned long int magic; char u_comm [32]; unsigned long int u_debugreg [8]; }; # 35 "/usr/include/sys/procfs.h" 2 3 4 typedef unsigned long elf_greg_t; typedef elf_greg_t elf_gregset_t[(sizeof (struct user_regs_struct) / sizeof(elf_greg_t))]; # 60 "/usr/include/sys/procfs.h" 3 4 typedef struct user_fpregs_struct elf_fpregset_t; struct elf_siginfo { int si_signo; int si_code; int si_errno; }; # 79 "/usr/include/sys/procfs.h" 3 4 struct elf_prstatus { struct elf_siginfo pr_info; short int pr_cursig; unsigned long int pr_sigpend; unsigned long int pr_sighold; __pid_t pr_pid; __pid_t pr_ppid; __pid_t pr_pgrp; __pid_t pr_sid; struct timeval pr_utime; struct timeval pr_stime; struct timeval pr_cutime; struct timeval pr_cstime; elf_gregset_t pr_reg; int pr_fpvalid; }; struct elf_prpsinfo { char pr_state; char pr_sname; char pr_zomb; char pr_nice; unsigned long int pr_flag; unsigned int pr_uid; unsigned int pr_gid; int pr_pid, pr_ppid, pr_pgrp, pr_sid; char pr_fname[16]; char pr_psargs[(80)]; }; typedef void *psaddr_t; typedef elf_gregset_t prgregset_t; typedef elf_fpregset_t prfpregset_t; typedef __pid_t lwpid_t; typedef struct elf_prstatus prstatus_t; typedef struct elf_prpsinfo prpsinfo_t; # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PROCFS_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/resource.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/resource.h" 1 3 4 # 22 "/usr/include/sys/resource.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 23 "/usr/include/sys/resource.h" 2 3 4 # 1 "/usr/include/bits/resource.h" 1 3 4 # 25 "/usr/include/bits/resource.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 26 "/usr/include/bits/resource.h" 2 3 4 enum __rlimit_resource { RLIMIT_CPU = 0, RLIMIT_FSIZE = 1, RLIMIT_DATA = 2, RLIMIT_STACK = 3, RLIMIT_CORE = 4, __RLIMIT_RSS = 5, RLIMIT_NOFILE = 7, __RLIMIT_OFILE = RLIMIT_NOFILE, RLIMIT_AS = 9, __RLIMIT_NPROC = 6, __RLIMIT_MEMLOCK = 8, __RLIMIT_LOCKS = 10, __RLIMIT_SIGPENDING = 11, __RLIMIT_MSGQUEUE = 12, __RLIMIT_NICE = 13, __RLIMIT_RTPRIO = 14, __RLIMIT_NLIMITS = 15, __RLIM_NLIMITS = __RLIMIT_NLIMITS }; # 127 "/usr/include/bits/resource.h" 3 4 typedef __rlim_t rlim_t; struct rlimit { rlim_t rlim_cur; rlim_t rlim_max; }; # 154 "/usr/include/bits/resource.h" 3 4 enum __rusage_who { RUSAGE_SELF = 0, RUSAGE_CHILDREN = -1 # 172 "/usr/include/bits/resource.h" 3 4 }; # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 176 "/usr/include/bits/resource.h" 2 3 4 struct rusage { struct timeval ru_utime; struct timeval ru_stime; long int ru_maxrss; long int ru_ixrss; long int ru_idrss; long int ru_isrss; long int ru_minflt; long int ru_majflt; long int ru_nswap; long int ru_inblock; long int ru_oublock; long int ru_msgsnd; long int ru_msgrcv; long int ru_nsignals; long int ru_nvcsw; long int ru_nivcsw; }; enum __priority_which { PRIO_PROCESS = 0, PRIO_PGRP = 1, PRIO_USER = 2 }; # 26 "/usr/include/sys/resource.h" 2 3 4 typedef __id_t id_t; # 43 "/usr/include/sys/resource.h" 3 4 typedef int __rlimit_resource_t; typedef int __rusage_who_t; typedef int __priority_which_t; extern int getrlimit (__rlimit_resource_t __resource, struct rlimit *__rlimits) __attribute__ ((__nothrow__)); # 70 "/usr/include/sys/resource.h" 3 4 extern int setrlimit (__rlimit_resource_t __resource, __const struct rlimit *__rlimits) __attribute__ ((__nothrow__)); # 88 "/usr/include/sys/resource.h" 3 4 extern int getrusage (__rusage_who_t __who, struct rusage *__usage) __attribute__ ((__nothrow__)); extern int getpriority (__priority_which_t __which, id_t __who) __attribute__ ((__nothrow__)); extern int setpriority (__priority_which_t __which, id_t __who, int __prio) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_RESOURCE_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: unistd.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/unistd.h" 1 3 4 # 26 "/usr/include/unistd.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/unistd.h" 2 3 4 # 203 "/usr/include/unistd.h" 3 4 # 1 "/usr/include/bits/posix_opt.h" 1 3 4 # 204 "/usr/include/unistd.h" 2 3 4 # 1 "/usr/include/bits/environments.h" 1 3 4 # 23 "/usr/include/bits/environments.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/environments.h" 2 3 4 # 208 "/usr/include/unistd.h" 2 3 4 # 218 "/usr/include/unistd.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 219 "/usr/include/unistd.h" 2 3 4 typedef __ssize_t ssize_t; # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 228 "/usr/include/unistd.h" 2 3 4 typedef __gid_t gid_t; typedef __uid_t uid_t; typedef __off_t off_t; # 256 "/usr/include/unistd.h" 3 4 typedef __useconds_t useconds_t; typedef __pid_t pid_t; typedef __intptr_t intptr_t; typedef __socklen_t socklen_t; # 288 "/usr/include/unistd.h" 3 4 extern int access (__const char *__name, int __type) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 305 "/usr/include/unistd.h" 3 4 extern int faccessat (int __fd, __const char *__file, int __type, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; # 331 "/usr/include/unistd.h" 3 4 extern __off_t lseek (int __fd, __off_t __offset, int __whence) __attribute__ ((__nothrow__)); # 350 "/usr/include/unistd.h" 3 4 extern int close (int __fd); extern ssize_t read (int __fd, void *__buf, size_t __nbytes) ; extern ssize_t write (int __fd, __const void *__buf, size_t __n) ; # 373 "/usr/include/unistd.h" 3 4 extern ssize_t pread (int __fd, void *__buf, size_t __nbytes, __off_t __offset) ; extern ssize_t pwrite (int __fd, __const void *__buf, size_t __n, __off_t __offset) ; # 414 "/usr/include/unistd.h" 3 4 extern int pipe (int __pipedes[2]) __attribute__ ((__nothrow__)) ; # 429 "/usr/include/unistd.h" 3 4 extern unsigned int alarm (unsigned int __seconds) __attribute__ ((__nothrow__)); # 441 "/usr/include/unistd.h" 3 4 extern unsigned int sleep (unsigned int __seconds); extern __useconds_t ualarm (__useconds_t __value, __useconds_t __interval) __attribute__ ((__nothrow__)); extern int usleep (__useconds_t __useconds); # 466 "/usr/include/unistd.h" 3 4 extern int pause (void); extern int chown (__const char *__file, __uid_t __owner, __gid_t __group) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int fchown (int __fd, __uid_t __owner, __gid_t __group) __attribute__ ((__nothrow__)) ; extern int lchown (__const char *__file, __uid_t __owner, __gid_t __group) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int fchownat (int __fd, __const char *__file, __uid_t __owner, __gid_t __group, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; extern int chdir (__const char *__path) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int fchdir (int __fd) __attribute__ ((__nothrow__)) ; # 508 "/usr/include/unistd.h" 3 4 extern char *getcwd (char *__buf, size_t __size) __attribute__ ((__nothrow__)) ; # 522 "/usr/include/unistd.h" 3 4 extern char *getwd (char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) __attribute__ ((__deprecated__)) ; extern int dup (int __fd) __attribute__ ((__nothrow__)) ; extern int dup2 (int __fd, int __fd2) __attribute__ ((__nothrow__)); # 540 "/usr/include/unistd.h" 3 4 extern char **__environ; extern int execve (__const char *__path, char *__const __argv[], char *__const __envp[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int fexecve (int __fd, char *__const __argv[], char *__const __envp[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int execv (__const char *__path, char *__const __argv[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execle (__const char *__path, __const char *__arg, ...) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execl (__const char *__path, __const char *__arg, ...) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execvp (__const char *__file, char *__const __argv[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execlp (__const char *__file, __const char *__arg, ...) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); # 595 "/usr/include/unistd.h" 3 4 extern int nice (int __inc) __attribute__ ((__nothrow__)) ; extern void _exit (int __status) __attribute__ ((__noreturn__)); # 1 "/usr/include/bits/confname.h" 1 3 4 # 26 "/usr/include/bits/confname.h" 3 4 enum { _PC_LINK_MAX, _PC_MAX_CANON, _PC_MAX_INPUT, _PC_NAME_MAX, _PC_PATH_MAX, _PC_PIPE_BUF, _PC_CHOWN_RESTRICTED, _PC_NO_TRUNC, _PC_VDISABLE, _PC_SYNC_IO, _PC_ASYNC_IO, _PC_PRIO_IO, _PC_SOCK_MAXBUF, _PC_FILESIZEBITS, _PC_REC_INCR_XFER_SIZE, _PC_REC_MAX_XFER_SIZE, _PC_REC_MIN_XFER_SIZE, _PC_REC_XFER_ALIGN, _PC_ALLOC_SIZE_MIN, _PC_SYMLINK_MAX, _PC_2_SYMLINKS }; enum { _SC_ARG_MAX, _SC_CHILD_MAX, _SC_CLK_TCK, _SC_NGROUPS_MAX, _SC_OPEN_MAX, _SC_STREAM_MAX, _SC_TZNAME_MAX, _SC_JOB_CONTROL, _SC_SAVED_IDS, _SC_REALTIME_SIGNALS, _SC_PRIORITY_SCHEDULING, _SC_TIMERS, _SC_ASYNCHRONOUS_IO, _SC_PRIORITIZED_IO, _SC_SYNCHRONIZED_IO, _SC_FSYNC, _SC_MAPPED_FILES, _SC_MEMLOCK, _SC_MEMLOCK_RANGE, _SC_MEMORY_PROTECTION, _SC_MESSAGE_PASSING, _SC_SEMAPHORES, _SC_SHARED_MEMORY_OBJECTS, _SC_AIO_LISTIO_MAX, _SC_AIO_MAX, _SC_AIO_PRIO_DELTA_MAX, _SC_DELAYTIMER_MAX, _SC_MQ_OPEN_MAX, _SC_MQ_PRIO_MAX, _SC_VERSION, _SC_PAGESIZE, _SC_RTSIG_MAX, _SC_SEM_NSEMS_MAX, _SC_SEM_VALUE_MAX, _SC_SIGQUEUE_MAX, _SC_TIMER_MAX, _SC_BC_BASE_MAX, _SC_BC_DIM_MAX, _SC_BC_SCALE_MAX, _SC_BC_STRING_MAX, _SC_COLL_WEIGHTS_MAX, _SC_EQUIV_CLASS_MAX, _SC_EXPR_NEST_MAX, _SC_LINE_MAX, _SC_RE_DUP_MAX, _SC_CHARCLASS_NAME_MAX, _SC_2_VERSION, _SC_2_C_BIND, _SC_2_C_DEV, _SC_2_FORT_DEV, _SC_2_FORT_RUN, _SC_2_SW_DEV, _SC_2_LOCALEDEF, _SC_PII, _SC_PII_XTI, _SC_PII_SOCKET, _SC_PII_INTERNET, _SC_PII_OSI, _SC_POLL, _SC_SELECT, _SC_UIO_MAXIOV, _SC_IOV_MAX = _SC_UIO_MAXIOV, _SC_PII_INTERNET_STREAM, _SC_PII_INTERNET_DGRAM, _SC_PII_OSI_COTS, _SC_PII_OSI_CLTS, _SC_PII_OSI_M, _SC_T_IOV_MAX, _SC_THREADS, _SC_THREAD_SAFE_FUNCTIONS, _SC_GETGR_R_SIZE_MAX, _SC_GETPW_R_SIZE_MAX, _SC_LOGIN_NAME_MAX, _SC_TTY_NAME_MAX, _SC_THREAD_DESTRUCTOR_ITERATIONS, _SC_THREAD_KEYS_MAX, _SC_THREAD_STACK_MIN, _SC_THREAD_THREADS_MAX, _SC_THREAD_ATTR_STACKADDR, _SC_THREAD_ATTR_STACKSIZE, _SC_THREAD_PRIORITY_SCHEDULING, _SC_THREAD_PRIO_INHERIT, _SC_THREAD_PRIO_PROTECT, _SC_THREAD_PROCESS_SHARED, _SC_NPROCESSORS_CONF, _SC_NPROCESSORS_ONLN, _SC_PHYS_PAGES, _SC_AVPHYS_PAGES, _SC_ATEXIT_MAX, _SC_PASS_MAX, _SC_XOPEN_VERSION, _SC_XOPEN_XCU_VERSION, _SC_XOPEN_UNIX, _SC_XOPEN_CRYPT, _SC_XOPEN_ENH_I18N, _SC_XOPEN_SHM, _SC_2_CHAR_TERM, _SC_2_C_VERSION, _SC_2_UPE, _SC_XOPEN_XPG2, _SC_XOPEN_XPG3, _SC_XOPEN_XPG4, _SC_CHAR_BIT, _SC_CHAR_MAX, _SC_CHAR_MIN, _SC_INT_MAX, _SC_INT_MIN, _SC_LONG_BIT, _SC_WORD_BIT, _SC_MB_LEN_MAX, _SC_NZERO, _SC_SSIZE_MAX, _SC_SCHAR_MAX, _SC_SCHAR_MIN, _SC_SHRT_MAX, _SC_SHRT_MIN, _SC_UCHAR_MAX, _SC_UINT_MAX, _SC_ULONG_MAX, _SC_USHRT_MAX, _SC_NL_ARGMAX, _SC_NL_LANGMAX, _SC_NL_MSGMAX, _SC_NL_NMAX, _SC_NL_SETMAX, _SC_NL_TEXTMAX, _SC_XBS5_ILP32_OFF32, _SC_XBS5_ILP32_OFFBIG, _SC_XBS5_LP64_OFF64, _SC_XBS5_LPBIG_OFFBIG, _SC_XOPEN_LEGACY, _SC_XOPEN_REALTIME, _SC_XOPEN_REALTIME_THREADS, _SC_ADVISORY_INFO, _SC_BARRIERS, _SC_BASE, _SC_C_LANG_SUPPORT, _SC_C_LANG_SUPPORT_R, _SC_CLOCK_SELECTION, _SC_CPUTIME, _SC_THREAD_CPUTIME, _SC_DEVICE_IO, _SC_DEVICE_SPECIFIC, _SC_DEVICE_SPECIFIC_R, _SC_FD_MGMT, _SC_FIFO, _SC_PIPE, _SC_FILE_ATTRIBUTES, _SC_FILE_LOCKING, _SC_FILE_SYSTEM, _SC_MONOTONIC_CLOCK, _SC_MULTI_PROCESS, _SC_SINGLE_PROCESS, _SC_NETWORKING, _SC_READER_WRITER_LOCKS, _SC_SPIN_LOCKS, _SC_REGEXP, _SC_REGEX_VERSION, _SC_SHELL, _SC_SIGNALS, _SC_SPAWN, _SC_SPORADIC_SERVER, _SC_THREAD_SPORADIC_SERVER, _SC_SYSTEM_DATABASE, _SC_SYSTEM_DATABASE_R, _SC_TIMEOUTS, _SC_TYPED_MEMORY_OBJECTS, _SC_USER_GROUPS, _SC_USER_GROUPS_R, _SC_2_PBS, _SC_2_PBS_ACCOUNTING, _SC_2_PBS_LOCATE, _SC_2_PBS_MESSAGE, _SC_2_PBS_TRACK, _SC_SYMLOOP_MAX, _SC_STREAMS, _SC_2_PBS_CHECKPOINT, _SC_V6_ILP32_OFF32, _SC_V6_ILP32_OFFBIG, _SC_V6_LP64_OFF64, _SC_V6_LPBIG_OFFBIG, _SC_HOST_NAME_MAX, _SC_TRACE, _SC_TRACE_EVENT_FILTER, _SC_TRACE_INHERIT, _SC_TRACE_LOG, _SC_LEVEL1_ICACHE_SIZE, _SC_LEVEL1_ICACHE_ASSOC, _SC_LEVEL1_ICACHE_LINESIZE, _SC_LEVEL1_DCACHE_SIZE, _SC_LEVEL1_DCACHE_ASSOC, _SC_LEVEL1_DCACHE_LINESIZE, _SC_LEVEL2_CACHE_SIZE, _SC_LEVEL2_CACHE_ASSOC, _SC_LEVEL2_CACHE_LINESIZE, _SC_LEVEL3_CACHE_SIZE, _SC_LEVEL3_CACHE_ASSOC, _SC_LEVEL3_CACHE_LINESIZE, _SC_LEVEL4_CACHE_SIZE, _SC_LEVEL4_CACHE_ASSOC, _SC_LEVEL4_CACHE_LINESIZE, _SC_IPV6 = _SC_LEVEL1_ICACHE_SIZE + 50, _SC_RAW_SOCKETS, _SC_V7_ILP32_OFF32, _SC_V7_ILP32_OFFBIG, _SC_V7_LP64_OFF64, _SC_V7_LPBIG_OFFBIG, _SC_SS_REPL_MAX, _SC_TRACE_EVENT_NAME_MAX, _SC_TRACE_NAME_MAX, _SC_TRACE_SYS_MAX, _SC_TRACE_USER_EVENT_MAX, _SC_XOPEN_STREAMS, _SC_THREAD_ROBUST_PRIO_INHERIT, _SC_THREAD_ROBUST_PRIO_PROTECT }; enum { _CS_PATH, _CS_V6_WIDTH_RESTRICTED_ENVS, _CS_GNU_LIBC_VERSION, _CS_GNU_LIBPTHREAD_VERSION, _CS_V5_WIDTH_RESTRICTED_ENVS, _CS_V7_WIDTH_RESTRICTED_ENVS, _CS_LFS_CFLAGS = 1000, _CS_LFS_LDFLAGS, _CS_LFS_LIBS, _CS_LFS_LINTFLAGS, _CS_LFS64_CFLAGS, _CS_LFS64_LDFLAGS, _CS_LFS64_LIBS, _CS_LFS64_LINTFLAGS, _CS_XBS5_ILP32_OFF32_CFLAGS = 1100, _CS_XBS5_ILP32_OFF32_LDFLAGS, _CS_XBS5_ILP32_OFF32_LIBS, _CS_XBS5_ILP32_OFF32_LINTFLAGS, _CS_XBS5_ILP32_OFFBIG_CFLAGS, _CS_XBS5_ILP32_OFFBIG_LDFLAGS, _CS_XBS5_ILP32_OFFBIG_LIBS, _CS_XBS5_ILP32_OFFBIG_LINTFLAGS, _CS_XBS5_LP64_OFF64_CFLAGS, _CS_XBS5_LP64_OFF64_LDFLAGS, _CS_XBS5_LP64_OFF64_LIBS, _CS_XBS5_LP64_OFF64_LINTFLAGS, _CS_XBS5_LPBIG_OFFBIG_CFLAGS, _CS_XBS5_LPBIG_OFFBIG_LDFLAGS, _CS_XBS5_LPBIG_OFFBIG_LIBS, _CS_XBS5_LPBIG_OFFBIG_LINTFLAGS, _CS_POSIX_V6_ILP32_OFF32_CFLAGS, _CS_POSIX_V6_ILP32_OFF32_LDFLAGS, _CS_POSIX_V6_ILP32_OFF32_LIBS, _CS_POSIX_V6_ILP32_OFF32_LINTFLAGS, _CS_POSIX_V6_ILP32_OFFBIG_CFLAGS, _CS_POSIX_V6_ILP32_OFFBIG_LDFLAGS, _CS_POSIX_V6_ILP32_OFFBIG_LIBS, _CS_POSIX_V6_ILP32_OFFBIG_LINTFLAGS, _CS_POSIX_V6_LP64_OFF64_CFLAGS, _CS_POSIX_V6_LP64_OFF64_LDFLAGS, _CS_POSIX_V6_LP64_OFF64_LIBS, _CS_POSIX_V6_LP64_OFF64_LINTFLAGS, _CS_POSIX_V6_LPBIG_OFFBIG_CFLAGS, _CS_POSIX_V6_LPBIG_OFFBIG_LDFLAGS, _CS_POSIX_V6_LPBIG_OFFBIG_LIBS, _CS_POSIX_V6_LPBIG_OFFBIG_LINTFLAGS, _CS_POSIX_V7_ILP32_OFF32_CFLAGS, _CS_POSIX_V7_ILP32_OFF32_LDFLAGS, _CS_POSIX_V7_ILP32_OFF32_LIBS, _CS_POSIX_V7_ILP32_OFF32_LINTFLAGS, _CS_POSIX_V7_ILP32_OFFBIG_CFLAGS, _CS_POSIX_V7_ILP32_OFFBIG_LDFLAGS, _CS_POSIX_V7_ILP32_OFFBIG_LIBS, _CS_POSIX_V7_ILP32_OFFBIG_LINTFLAGS, _CS_POSIX_V7_LP64_OFF64_CFLAGS, _CS_POSIX_V7_LP64_OFF64_LDFLAGS, _CS_POSIX_V7_LP64_OFF64_LIBS, _CS_POSIX_V7_LP64_OFF64_LINTFLAGS, _CS_POSIX_V7_LPBIG_OFFBIG_CFLAGS, _CS_POSIX_V7_LPBIG_OFFBIG_LDFLAGS, _CS_POSIX_V7_LPBIG_OFFBIG_LIBS, _CS_POSIX_V7_LPBIG_OFFBIG_LINTFLAGS, _CS_V6_ENV, _CS_V7_ENV }; # 607 "/usr/include/unistd.h" 2 3 4 extern long int pathconf (__const char *__path, int __name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int fpathconf (int __fd, int __name) __attribute__ ((__nothrow__)); extern long int sysconf (int __name) __attribute__ ((__nothrow__)); extern size_t confstr (int __name, char *__buf, size_t __len) __attribute__ ((__nothrow__)); extern __pid_t getpid (void) __attribute__ ((__nothrow__)); extern __pid_t getppid (void) __attribute__ ((__nothrow__)); extern __pid_t getpgrp (void) __attribute__ ((__nothrow__)); # 643 "/usr/include/unistd.h" 3 4 extern __pid_t __getpgid (__pid_t __pid) __attribute__ ((__nothrow__)); extern __pid_t getpgid (__pid_t __pid) __attribute__ ((__nothrow__)); extern int setpgid (__pid_t __pid, __pid_t __pgid) __attribute__ ((__nothrow__)); # 669 "/usr/include/unistd.h" 3 4 extern int setpgrp (void) __attribute__ ((__nothrow__)); # 686 "/usr/include/unistd.h" 3 4 extern __pid_t setsid (void) __attribute__ ((__nothrow__)); extern __pid_t getsid (__pid_t __pid) __attribute__ ((__nothrow__)); extern __uid_t getuid (void) __attribute__ ((__nothrow__)); extern __uid_t geteuid (void) __attribute__ ((__nothrow__)); extern __gid_t getgid (void) __attribute__ ((__nothrow__)); extern __gid_t getegid (void) __attribute__ ((__nothrow__)); extern int getgroups (int __size, __gid_t __list[]) __attribute__ ((__nothrow__)) ; # 719 "/usr/include/unistd.h" 3 4 extern int setuid (__uid_t __uid) __attribute__ ((__nothrow__)); extern int setreuid (__uid_t __ruid, __uid_t __euid) __attribute__ ((__nothrow__)); extern int seteuid (__uid_t __uid) __attribute__ ((__nothrow__)); extern int setgid (__gid_t __gid) __attribute__ ((__nothrow__)); extern int setregid (__gid_t __rgid, __gid_t __egid) __attribute__ ((__nothrow__)); extern int setegid (__gid_t __gid) __attribute__ ((__nothrow__)); # 775 "/usr/include/unistd.h" 3 4 extern __pid_t fork (void) __attribute__ ((__nothrow__)); extern __pid_t vfork (void) __attribute__ ((__nothrow__)); extern char *ttyname (int __fd) __attribute__ ((__nothrow__)); extern int ttyname_r (int __fd, char *__buf, size_t __buflen) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; extern int isatty (int __fd) __attribute__ ((__nothrow__)); extern int ttyslot (void) __attribute__ ((__nothrow__)); extern int link (__const char *__from, __const char *__to) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) ; extern int linkat (int __fromfd, __const char *__from, int __tofd, __const char *__to, int __flags) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))) ; extern int symlink (__const char *__from, __const char *__to) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) ; extern ssize_t readlink (__const char *__restrict __path, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) ; extern int symlinkat (__const char *__from, int __tofd, __const char *__to) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 3))) ; extern ssize_t readlinkat (int __fd, __const char *__restrict __path, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))) ; extern int unlink (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int unlinkat (int __fd, __const char *__name, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int rmdir (__const char *__path) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern __pid_t tcgetpgrp (int __fd) __attribute__ ((__nothrow__)); extern int tcsetpgrp (int __fd, __pid_t __pgrp_id) __attribute__ ((__nothrow__)); extern char *getlogin (void); extern int getlogin_r (char *__name, size_t __name_len) __attribute__ ((__nonnull__ (1))); extern int setlogin (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 890 "/usr/include/unistd.h" 3 4 # 1 "/usr/include/getopt.h" 1 3 4 # 59 "/usr/include/getopt.h" 3 4 extern char *optarg; # 73 "/usr/include/getopt.h" 3 4 extern int optind; extern int opterr; extern int optopt; # 152 "/usr/include/getopt.h" 3 4 extern int getopt (int ___argc, char *const *___argv, const char *__shortopts) __attribute__ ((__nothrow__)); # 891 "/usr/include/unistd.h" 2 3 4 extern int gethostname (char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sethostname (__const char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int sethostid (long int __id) __attribute__ ((__nothrow__)) ; extern int getdomainname (char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int setdomainname (__const char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int vhangup (void) __attribute__ ((__nothrow__)); extern int revoke (__const char *__file) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int profil (unsigned short int *__sample_buffer, size_t __size, size_t __offset, unsigned int __scale) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int acct (__const char *__name) __attribute__ ((__nothrow__)); extern char *getusershell (void) __attribute__ ((__nothrow__)); extern void endusershell (void) __attribute__ ((__nothrow__)); extern void setusershell (void) __attribute__ ((__nothrow__)); extern int daemon (int __nochdir, int __noclose) __attribute__ ((__nothrow__)) ; extern int chroot (__const char *__path) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern char *getpass (__const char *__prompt) __attribute__ ((__nonnull__ (1))); # 976 "/usr/include/unistd.h" 3 4 extern int fsync (int __fd); extern long int gethostid (void); extern void sync (void) __attribute__ ((__nothrow__)); extern int getpagesize (void) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int getdtablesize (void) __attribute__ ((__nothrow__)); # 1007 "/usr/include/unistd.h" 3 4 extern int truncate (__const char *__file, __off_t __length) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 1026 "/usr/include/unistd.h" 3 4 extern int ftruncate (int __fd, __off_t __length) __attribute__ ((__nothrow__)) ; # 1047 "/usr/include/unistd.h" 3 4 extern int brk (void *__addr) __attribute__ ((__nothrow__)) ; extern void *sbrk (intptr_t __delta) __attribute__ ((__nothrow__)); # 1068 "/usr/include/unistd.h" 3 4 extern long int syscall (long int __sysno, ...) __attribute__ ((__nothrow__)); # 1091 "/usr/include/unistd.h" 3 4 extern int lockf (int __fd, int __cmd, __off_t __len) ; # 1122 "/usr/include/unistd.h" 3 4 extern int fdatasync (int __fildes); # 1151 "/usr/include/unistd.h" 3 4 extern char *ctermid (char *__s) __attribute__ ((__nothrow__)); # 1160 "/usr/include/unistd.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_UNISTD_H" to "1" ================================================================================ TEST check from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: netinet/in.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/netinet/in.h" 1 3 4 # 23 "/usr/include/netinet/in.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/netinet/in.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 27 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 37 "/usr/include/stdint.h" 3 4 typedef signed char int8_t; typedef short int int16_t; typedef int int32_t; typedef long int int64_t; typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 25 "/usr/include/netinet/in.h" 2 3 4 # 1 "/usr/include/sys/socket.h" 1 3 4 # 26 "/usr/include/sys/socket.h" 3 4 # 1 "/usr/include/sys/uio.h" 1 3 4 # 24 "/usr/include/sys/uio.h" 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 201 "/usr/include/sys/types.h" 3 4 typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 25 "/usr/include/sys/uio.h" 2 3 4 # 1 "/usr/include/bits/uio.h" 1 3 4 # 44 "/usr/include/bits/uio.h" 3 4 struct iovec { void *iov_base; size_t iov_len; }; # 30 "/usr/include/sys/uio.h" 2 3 4 # 40 "/usr/include/sys/uio.h" 3 4 extern ssize_t readv (int __fd, __const struct iovec *__iovec, int __count) ; # 51 "/usr/include/sys/uio.h" 3 4 extern ssize_t writev (int __fd, __const struct iovec *__iovec, int __count) ; # 66 "/usr/include/sys/uio.h" 3 4 extern ssize_t preadv (int __fd, __const struct iovec *__iovec, int __count, __off_t __offset) ; # 78 "/usr/include/sys/uio.h" 3 4 extern ssize_t pwritev (int __fd, __const struct iovec *__iovec, int __count, __off_t __offset) ; # 121 "/usr/include/sys/uio.h" 3 4 # 29 "/usr/include/sys/socket.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 31 "/usr/include/sys/socket.h" 2 3 4 # 40 "/usr/include/sys/socket.h" 3 4 # 1 "/usr/include/bits/socket.h" 1 3 4 # 29 "/usr/include/bits/socket.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 30 "/usr/include/bits/socket.h" 2 3 4 typedef __socklen_t socklen_t; enum __socket_type { SOCK_STREAM = 1, SOCK_DGRAM = 2, SOCK_RAW = 3, SOCK_RDM = 4, SOCK_SEQPACKET = 5, SOCK_DCCP = 6, SOCK_PACKET = 10, SOCK_CLOEXEC = 02000000, SOCK_NONBLOCK = 04000 }; # 171 "/usr/include/bits/socket.h" 3 4 # 1 "/usr/include/bits/sockaddr.h" 1 3 4 # 29 "/usr/include/bits/sockaddr.h" 3 4 typedef unsigned short int sa_family_t; # 172 "/usr/include/bits/socket.h" 2 3 4 struct sockaddr { sa_family_t sa_family; char sa_data[14]; }; # 187 "/usr/include/bits/socket.h" 3 4 struct sockaddr_storage { sa_family_t ss_family; unsigned long int __ss_align; char __ss_padding[(128 - (2 * sizeof (unsigned long int)))]; }; enum { MSG_OOB = 0x01, MSG_PEEK = 0x02, MSG_DONTROUTE = 0x04, MSG_CTRUNC = 0x08, MSG_PROXY = 0x10, MSG_TRUNC = 0x20, MSG_DONTWAIT = 0x40, MSG_EOR = 0x80, MSG_WAITALL = 0x100, MSG_FIN = 0x200, MSG_SYN = 0x400, MSG_CONFIRM = 0x800, MSG_RST = 0x1000, MSG_ERRQUEUE = 0x2000, MSG_NOSIGNAL = 0x4000, MSG_MORE = 0x8000, MSG_WAITFORONE = 0x10000, MSG_CMSG_CLOEXEC = 0x40000000 }; struct msghdr { void *msg_name; socklen_t msg_namelen; struct iovec *msg_iov; size_t msg_iovlen; void *msg_control; size_t msg_controllen; int msg_flags; }; # 274 "/usr/include/bits/socket.h" 3 4 struct cmsghdr { size_t cmsg_len; int cmsg_level; int cmsg_type; __extension__ unsigned char __cmsg_data []; }; # 304 "/usr/include/bits/socket.h" 3 4 extern struct cmsghdr *__cmsg_nxthdr (struct msghdr *__mhdr, struct cmsghdr *__cmsg) __attribute__ ((__nothrow__)); # 331 "/usr/include/bits/socket.h" 3 4 enum { SCM_RIGHTS = 0x01 }; # 377 "/usr/include/bits/socket.h" 3 4 # 1 "/usr/include/asm/socket.h" 1 3 4 # 1 "/usr/include/asm-generic/socket.h" 1 3 4 # 1 "/usr/include/asm/sockios.h" 1 3 4 # 1 "/usr/include/asm-generic/sockios.h" 1 3 4 # 1 "/usr/include/asm/sockios.h" 2 3 4 # 5 "/usr/include/asm-generic/socket.h" 2 3 4 # 1 "/usr/include/asm/socket.h" 2 3 4 # 378 "/usr/include/bits/socket.h" 2 3 4 # 411 "/usr/include/bits/socket.h" 3 4 struct linger { int l_onoff; int l_linger; }; extern int recvmmsg (int __fd, struct mmsghdr *__vmessages, unsigned int __vlen, int __flags, __const struct timespec *__tmo); # 41 "/usr/include/sys/socket.h" 2 3 4 struct osockaddr { unsigned short int sa_family; unsigned char sa_data[14]; }; enum { SHUT_RD = 0, SHUT_WR, SHUT_RDWR }; # 105 "/usr/include/sys/socket.h" 3 4 extern int socket (int __domain, int __type, int __protocol) __attribute__ ((__nothrow__)); extern int socketpair (int __domain, int __type, int __protocol, int __fds[2]) __attribute__ ((__nothrow__)); extern int bind (int __fd, __const struct sockaddr * __addr, socklen_t __len) __attribute__ ((__nothrow__)); extern int getsockname (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __len) __attribute__ ((__nothrow__)); # 129 "/usr/include/sys/socket.h" 3 4 extern int connect (int __fd, __const struct sockaddr * __addr, socklen_t __len); extern int getpeername (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __len) __attribute__ ((__nothrow__)); extern ssize_t send (int __fd, __const void *__buf, size_t __n, int __flags); extern ssize_t recv (int __fd, void *__buf, size_t __n, int __flags); extern ssize_t sendto (int __fd, __const void *__buf, size_t __n, int __flags, __const struct sockaddr * __addr, socklen_t __addr_len); # 166 "/usr/include/sys/socket.h" 3 4 extern ssize_t recvfrom (int __fd, void *__restrict __buf, size_t __n, int __flags, struct sockaddr *__restrict __addr, socklen_t *__restrict __addr_len); extern ssize_t sendmsg (int __fd, __const struct msghdr *__message, int __flags); extern ssize_t recvmsg (int __fd, struct msghdr *__message, int __flags); extern int getsockopt (int __fd, int __level, int __optname, void *__restrict __optval, socklen_t *__restrict __optlen) __attribute__ ((__nothrow__)); extern int setsockopt (int __fd, int __level, int __optname, __const void *__optval, socklen_t __optlen) __attribute__ ((__nothrow__)); extern int listen (int __fd, int __n) __attribute__ ((__nothrow__)); # 214 "/usr/include/sys/socket.h" 3 4 extern int accept (int __fd, struct sockaddr *__restrict __addr, socklen_t *__restrict __addr_len); # 232 "/usr/include/sys/socket.h" 3 4 extern int shutdown (int __fd, int __how) __attribute__ ((__nothrow__)); extern int sockatmark (int __fd) __attribute__ ((__nothrow__)); extern int isfdtype (int __fd, int __fdtype) __attribute__ ((__nothrow__)); # 254 "/usr/include/sys/socket.h" 3 4 # 26 "/usr/include/netinet/in.h" 2 3 4 typedef uint32_t in_addr_t; struct in_addr { in_addr_t s_addr; }; # 1 "/usr/include/bits/in.h" 1 3 4 # 111 "/usr/include/bits/in.h" 3 4 struct ip_opts { struct in_addr ip_dst; char ip_opts[40]; }; struct ip_mreqn { struct in_addr imr_multiaddr; struct in_addr imr_address; int imr_ifindex; }; struct in_pktinfo { int ipi_ifindex; struct in_addr ipi_spec_dst; struct in_addr ipi_addr; }; # 40 "/usr/include/netinet/in.h" 2 3 4 enum { IPPROTO_IP = 0, IPPROTO_ICMP = 1, IPPROTO_IGMP = 2, IPPROTO_IPIP = 4, IPPROTO_TCP = 6, IPPROTO_EGP = 8, IPPROTO_PUP = 12, IPPROTO_UDP = 17, IPPROTO_IDP = 22, IPPROTO_TP = 29, IPPROTO_DCCP = 33, IPPROTO_IPV6 = 41, IPPROTO_RSVP = 46, IPPROTO_GRE = 47, IPPROTO_ESP = 50, IPPROTO_AH = 51, IPPROTO_MTP = 92, IPPROTO_BEETPH = 94, IPPROTO_ENCAP = 98, IPPROTO_PIM = 103, IPPROTO_COMP = 108, IPPROTO_SCTP = 132, IPPROTO_UDPLITE = 136, IPPROTO_RAW = 255, IPPROTO_MAX }; enum { IPPROTO_HOPOPTS = 0, IPPROTO_ROUTING = 43, IPPROTO_FRAGMENT = 44, IPPROTO_ICMPV6 = 58, IPPROTO_NONE = 59, IPPROTO_DSTOPTS = 60, IPPROTO_MH = 135, }; typedef uint16_t in_port_t; enum { IPPORT_ECHO = 7, IPPORT_DISCARD = 9, IPPORT_SYSTAT = 11, IPPORT_DAYTIME = 13, IPPORT_NETSTAT = 15, IPPORT_FTP = 21, IPPORT_TELNET = 23, IPPORT_SMTP = 25, IPPORT_TIMESERVER = 37, IPPORT_NAMESERVER = 42, IPPORT_WHOIS = 43, IPPORT_MTP = 57, IPPORT_TFTP = 69, IPPORT_RJE = 77, IPPORT_FINGER = 79, IPPORT_TTYLINK = 87, IPPORT_SUPDUP = 95, IPPORT_EXECSERVER = 512, IPPORT_LOGINSERVER = 513, IPPORT_CMDSERVER = 514, IPPORT_EFSSERVER = 520, IPPORT_BIFFUDP = 512, IPPORT_WHOSERVER = 513, IPPORT_ROUTESERVER = 520, IPPORT_RESERVED = 1024, IPPORT_USERRESERVED = 5000 }; # 211 "/usr/include/netinet/in.h" 3 4 struct in6_addr { union { uint8_t __u6_addr8[16]; uint16_t __u6_addr16[8]; uint32_t __u6_addr32[4]; } __in6_u; }; extern const struct in6_addr in6addr_any; extern const struct in6_addr in6addr_loopback; # 239 "/usr/include/netinet/in.h" 3 4 struct sockaddr_in { sa_family_t sin_family; in_port_t sin_port; struct in_addr sin_addr; unsigned char sin_zero[sizeof (struct sockaddr) - (sizeof (unsigned short int)) - sizeof (in_port_t) - sizeof (struct in_addr)]; }; struct sockaddr_in6 { sa_family_t sin6_family; in_port_t sin6_port; uint32_t sin6_flowinfo; struct in6_addr sin6_addr; uint32_t sin6_scope_id; }; struct ip_mreq { struct in_addr imr_multiaddr; struct in_addr imr_interface; }; struct ip_mreq_source { struct in_addr imr_multiaddr; struct in_addr imr_interface; struct in_addr imr_sourceaddr; }; struct ipv6_mreq { struct in6_addr ipv6mr_multiaddr; unsigned int ipv6mr_interface; }; struct group_req { uint32_t gr_interface; struct sockaddr_storage gr_group; }; struct group_source_req { uint32_t gsr_interface; struct sockaddr_storage gsr_group; struct sockaddr_storage gsr_source; }; struct ip_msfilter { struct in_addr imsf_multiaddr; struct in_addr imsf_interface; uint32_t imsf_fmode; uint32_t imsf_numsrc; struct in_addr imsf_slist[1]; }; struct group_filter { uint32_t gf_interface; struct sockaddr_storage gf_group; uint32_t gf_fmode; uint32_t gf_numsrc; struct sockaddr_storage gf_slist[1]; }; # 376 "/usr/include/netinet/in.h" 3 4 extern uint32_t ntohl (uint32_t __netlong) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern uint16_t ntohs (uint16_t __netshort) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern uint32_t htonl (uint32_t __hostlong) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern uint16_t htons (uint16_t __hostshort) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 388 "/usr/include/netinet/in.h" 2 3 4 # 451 "/usr/include/netinet/in.h" 3 4 extern int bindresvport (int __sockfd, struct sockaddr_in *__sock_in) __attribute__ ((__nothrow__)); extern int bindresvport6 (int __sockfd, struct sockaddr_in6 *__sock_in) __attribute__ ((__nothrow__)); # 576 "/usr/include/netinet/in.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETINET_IN_H" to "1" ================================================================================ TEST checkRecursiveMacros from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:218) TESTING: checkRecursiveMacros from config.headers(config/BuildSystem/config/headers.py:218) Checks that the preprocessor allows recursive macros, and if not defines HAVE_BROKEN_RECURSIVE_MACRO Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.headers/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.headers -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void a(int i, int j) {} #define a(b) a(b,__LINE__) int main() { a(0); ; return 0; } ================================================================================ TEST configureCacheDetails from config.utilities.cacheDetails(/global/home/thl/petsc/config/BuildSystem/config/utilities/cacheDetails.py:78) TESTING: configureCacheDetails from config.utilities.cacheDetails(config/BuildSystem/config/utilities/cacheDetails.py:78) Try to determine the size and associativity of the cache. Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv/config.utilities.cacheDetails Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include long getconf_LEVEL1_DCACHE_SIZE() { long val = sysconf(_SC_LEVEL1_DCACHE_SIZE); return (16 <= val && val <= 2147483647) ? val : 32768; } int main() { ; return 0; } Popping language C Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include long getconf_LEVEL1_DCACHE_SIZE() { long val = sysconf(_SC_LEVEL1_DCACHE_SIZE); return (16 <= val && val <= 2147483647) ? val : 32768; } int main() { FILE *output = fopen("conftestval","w"); if (!output) return 1; fprintf(output,"%ld",getconf_LEVEL1_DCACHE_SIZE()); fclose(output);; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest Executing: /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest Popping language C Defined "LEVEL1_DCACHE_SIZE" to "32768" Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include long getconf_LEVEL1_DCACHE_LINESIZE() { long val = sysconf(_SC_LEVEL1_DCACHE_LINESIZE); return (16 <= val && val <= 2147483647) ? val : 32; } int main() { FILE *output = fopen("conftestval","w"); if (!output) return 1; fprintf(output,"%ld",getconf_LEVEL1_DCACHE_LINESIZE()); fclose(output);; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest Executing: /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest Popping language C Defined "LEVEL1_DCACHE_LINESIZE" to "64" Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include long getconf_LEVEL1_DCACHE_ASSOC() { long val = sysconf(_SC_LEVEL1_DCACHE_ASSOC); return (0 <= val && val <= 2147483647) ? val : 2; } int main() { FILE *output = fopen("conftestval","w"); if (!output) return 1; fprintf(output,"%ld",getconf_LEVEL1_DCACHE_ASSOC()); fclose(output);; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest Executing: /tmp/petsc-n3SpCv/config.utilities.cacheDetails/conftest Popping language C Defined "LEVEL1_DCACHE_ASSOC" to "8" ================================================================================ TEST check_siginfo_t from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:46) TESTING: check_siginfo_t from config.types(config/BuildSystem/config/types.py:46) Checks if siginfo_t exists in signal.h. This check is for windows, and C89 check. Checking for type: siginfo_t All intermediate test results are stored in /tmp/petsc-n3SpCv/config.types Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:11: warning: unused variable ‘a’ [-Wunused-variable] siginfo_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { siginfo_t a;; return 0; } siginfo_t found Defined "HAVE_SIGINFO_T" to "1" ================================================================================ TEST check__int64 from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:52) TESTING: check__int64 from config.types(config/BuildSystem/config/types.py:52) Checks if __int64 exists. This is primarily for windows. Checking for type: __int64 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:1: error: unknown type name ‘__int64’ __int64 a;; ^ /tmp/petsc-n3SpCv/config.types/conftest.c:13:9: warning: unused variable ‘a’ [-Wunused-variable] __int64 a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { __int64 a;; return 0; } __int64 found ================================================================================ TEST checkSizeTypes from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:58) TESTING: checkSizeTypes from config.types(config/BuildSystem/config/types.py:58) Checks for types associated with sizes, such as size_t. Checking for type: size_t Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:8: warning: unused variable ‘a’ [-Wunused-variable] size_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { size_t a;; return 0; } size_t found ================================================================================ TEST checkFileTypes from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:68) TESTING: checkFileTypes from config.types(config/BuildSystem/config/types.py:68) Checks for types associated with files, such as mode_t, off_t, etc. Checking for type: mode_t Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:8: warning: unused variable ‘a’ [-Wunused-variable] mode_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { mode_t a;; return 0; } mode_t found Checking for type: off_t Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:7: warning: unused variable ‘a’ [-Wunused-variable] off_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { off_t a;; return 0; } off_t found ================================================================================ TEST checkIntegerTypes from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:63) TESTING: checkIntegerTypes from config.types(config/BuildSystem/config/types.py:63) Checks for types associated with integers, such as int32_t. Checking for type: int32_t Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:9: warning: unused variable ‘a’ [-Wunused-variable] int32_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { int32_t a;; return 0; } int32_t found ================================================================================ TEST checkPID from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:74) TESTING: checkPID from config.types(config/BuildSystem/config/types.py:74) Checks for pid_t, and defines it if necessary Checking for type: pid_t Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:7: warning: unused variable ‘a’ [-Wunused-variable] pid_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { pid_t a;; return 0; } pid_t found ================================================================================ TEST checkUID from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:78) TESTING: checkUID from config.types(config/BuildSystem/config/types.py:78) Checks for uid_t and gid_t, and defines them if necessary Source: #include "confdefs.h" #include "conffix.h" #include Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.types /tmp/petsc-n3SpCv/config.types/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.types/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.types/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.types/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.types/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.types/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.types/conftest.c" 2 # 1 "/usr/include/sys/types.h" 1 3 4 # 26 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 3 "/tmp/petsc-n3SpCv/config.types/conftest.c" 2 ================================================================================ TEST checkSignal from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:85) TESTING: checkSignal from config.types(config/BuildSystem/config/types.py:85) Checks the return type of signal() and defines RETSIGTYPE to that type name Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #ifdef signal #undef signal #endif #ifdef __cplusplus extern "C" void (*signal (int, void(*)(int)))(int); #else void (*signal())(); #endif int main() { ; return 0; } Defined "RETSIGTYPE" to "void" ================================================================================ TEST checkC99Complex from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:106) TESTING: checkC99Complex from config.types(config/BuildSystem/config/types.py:106) Check for complex numbers in in C99 std Note that since PETSc source code uses _Complex we test specifically for that, not complex Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:6:17: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] double _Complex x; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:6:17: warning: variable ‘x’ set but not used [-Wunused-but-set-variable] double _Complex x; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_C99_COMPLEX" to "1" ================================================================================ TEST checkCxxComplex from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:117) TESTING: checkCxxComplex from config.types(config/BuildSystem/config/types.py:117) Check for complex numbers in namespace std Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.types/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { std::complex x; ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.types/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_CXX_COMPLEX" to "1" Popping language Cxx ================================================================================ TEST checkFortranKind from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:138) TESTING: checkFortranKind from config.types(config/BuildSystem/config/types.py:138) Checks whether selected_int_kind etc work USE_FORTRANKIND Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.types/conftest.F90 Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.F90:4.43: real(kind=selected_real_kind(10)) d 1 Warning: Unused variable 'd' declared at (1) /tmp/petsc-n3SpCv/config.types/conftest.F90:3.45: integer(kind=selected_int_kind(10)) i 1 Warning: Unused variable 'i' declared at (1) Source: program main integer(kind=selected_int_kind(10)) i real(kind=selected_real_kind(10)) d end Defined "USE_FORTRANKIND" to "1" Popping language FC ================================================================================ TEST checkConst from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:150) TESTING: checkConst from config.types(config/BuildSystem/config/types.py:150) Checks for working const, and if not found defines it to empty string Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:30:9: warning: ‘t’ is used uninitialized in this function [-Wuninitialized] *t++ = 0; ^ /tmp/petsc-n3SpCv/config.types/conftest.c:46:25: warning: ‘b’ is used uninitialized in this function [-Wuninitialized] struct s *b; b->j = 5; ^ Source: #include "confdefs.h" #include "conffix.h" int main() { /* Ultrix mips cc rejects this. */ typedef int charset[2]; const charset x; /* SunOS 4.1.1 cc rejects this. */ char const *const *ccp; char **p; /* NEC SVR4.0.2 mips cc rejects this. */ struct point {int x, y;}; static struct point const zero = {0,0}; /* AIX XL C 1.02.0.0 rejects this. It does not let you subtract one const X* pointer from another in an arm of an if-expression whose if-part is not a constant expression */ const char *g = "string"; ccp = &g + (g ? g-g : 0); /* HPUX 7.0 cc rejects these. */ ++ccp; p = (char**) ccp; ccp = (char const *const *) p; /* This section avoids unused variable warnings */ if (zero.x); if (x[0]); { /* SCO 3.2v4 cc rejects this. */ char *t; char const *s = 0 ? (char *) 0 : (char const *) 0; *t++ = 0; if (*s); } { /* Someone thinks the Sun supposedly-ANSI compiler will reject this. */ int x[] = {25, 17}; const int *foo = &x[0]; ++foo; } { /* Sun SC1.0 ANSI compiler rejects this -- but not the above. */ typedef const int *iptr; iptr p = 0; ++p; } { /* AIX XL C 1.02.0.0 rejects this saying "k.c", line 2.27: 1506-025 (S) Operand must be a modifiable lvalue. */ struct s { int j; const int *ap[3]; }; struct s *b; b->j = 5; } { /* ULTRIX-32 V3.1 (Rev 9) vcc rejects this */ const int foo = 10; /* Get rid of unused variable warning */ if (foo); } ; return 0; } ================================================================================ TEST checkEndian from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:206) TESTING: checkEndian from config.types(config/BuildSystem/config/types.py:206) If the machine is big endian, defines WORDS_BIGENDIAN Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #ifdef HAVE_SYS_PARAM_H #include #endif int main() { #if !BYTE_ORDER || !BIG_ENDIAN || !LITTLE_ENDIAN bogus endian macros #endif ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:11:3: error: unknown type name ‘not’ not big endian ^ /tmp/petsc-n3SpCv/config.types/conftest.c:11:11: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘endian’ not big endian ^ Source: #include "confdefs.h" #include "conffix.h" #include #ifdef HAVE_SYS_PARAM_H #include #endif int main() { #if BYTE_ORDER != BIG_ENDIAN not big endian #endif ; return 0; } ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: char Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(char)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_CHAR" to "1" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: void * Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(void *)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_VOID_P" to "8" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: short Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(short)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_SHORT" to "2" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: int Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(int)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_INT" to "4" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: long Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(long)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_LONG" to "8" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: long long Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(long long)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_LONG_LONG" to "8" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: float Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(float)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_FLOAT" to "4" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: double Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(double)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_DOUBLE" to "8" ================================================================================ TEST checkSizeof from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:259) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:259) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: size_t Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(size_t)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_SIZE_T" to "8" ================================================================================ TEST checkBitsPerByte from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:310) TESTING: checkBitsPerByte from config.types(config/BuildSystem/config/types.py:310) Determine the nubmer of bits per byte and define BITS_PER_BYTE Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if STDC_HEADERS #include #include #endif int main() { FILE *f = fopen("conftestval", "w"); char val[2]; int i = 0; if (!f) exit(1); val[0]='\1'; val[1]='\0'; while(val[0]) {val[0] <<= 1; i++;} fprintf(f, "%d\n", i); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Defined "BITS_PER_BYTE" to "8" ================================================================================ TEST checkVisibility from config.types(/global/home/thl/petsc/config/BuildSystem/config/types.py:356) TESTING: checkVisibility from config.types(config/BuildSystem/config/types.py:356) Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { __attribute__((visibility ("default"))) int foo(void);; return 0; } Defined "USE_VISIBILITY_C" to "1" Popping language C Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.types/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { __attribute__((visibility ("default"))) int foo(void);; return 0; } Defined "USE_VISIBILITY_CXX" to "1" Popping language Cxx ================================================================================ TEST configureMemAlign from PETSc.options.memAlign(/global/home/thl/petsc/config/PETSc/options/memAlign.py:30) TESTING: configureMemAlign from PETSc.options.memAlign(config/PETSc/options/memAlign.py:30) Choose alignment Defined "MEMALIGN" to "16" Memory alignment is 16 ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [socket] in library ['socket', 'nsl'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char socket(); static void _check_socket() { socket(); } int main() { _check_socket();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lsocket -lnsl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lsocket collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [handle_sigfpes] in library ['fpe'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char handle_sigfpes(); static void _check_handle_sigfpes() { handle_sigfpes(); } int main() { _check_handle_sigfpes();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lfpe -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lfpe /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'handle_sigfpes' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [socket] in library ['socket', 'nsl'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char socket(); static void _check_socket() { socket(); } int main() { _check_socket();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lsocket -lnsl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lsocket collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [handle_sigfpes] in library ['fpe'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char handle_sigfpes(); static void _check_handle_sigfpes() { handle_sigfpes(); } int main() { _check_handle_sigfpes();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lfpe -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ld.gold: error: cannot find -lfpe /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'handle_sigfpes' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkMath from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:264) TESTING: checkMath from config.libraries(config/BuildSystem/config/libraries.py:264) Check for sin() in libm, the math library Checking for functions [sin floor log10 pow] in library [''] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include double sin(double); static void _check_sin() { double x,y; scanf("%lf",&x); y = sin(x); printf("%f",y); ; } #include double floor(double); static void _check_floor() { double x,y; scanf("%lf",&x); y = floor(x); printf("%f",y); ; } #include double log10(double); static void _check_log10() { double x,y; scanf("%lf",&x); y = log10(x); printf("%f",y); ; } #include double pow(double, double); static void _check_pow() { double x,y; scanf("%lf",&x); y = pow(x,x); printf("%f",y); ; } int main() { _check_sin(); _check_floor(); _check_log10(); _check_pow();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'sin' /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'floor' /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'log10' /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'pow' collect2: error: ld returned 1 exit status Popping language C Checking for functions [sin floor log10 pow] in library ['m'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include double sin(double); static void _check_sin() { double x,y; scanf("%lf",&x); y = sin(x); printf("%f",y); ; } #include double floor(double); static void _check_floor() { double x,y; scanf("%lf",&x); y = floor(x); printf("%f",y); ; } #include double log10(double); static void _check_log10() { double x,y; scanf("%lf",&x); y = log10(x); printf("%f",y); ; } #include double pow(double, double); static void _check_pow() { double x,y; scanf("%lf",&x); y = pow(x,x); printf("%f",y); ; } int main() { _check_sin(); _check_floor(); _check_log10(); _check_pow();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBM" to "1" Popping language C CheckMath: using math library ['libm.a'] ================================================================================ TEST checkMathErf from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:283) TESTING: checkMathErf from config.libraries(config/BuildSystem/config/libraries.py:283) Check for erf() in libm, the math library Checking for functions [erf] in library ['libm.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c: In function ‘_check_erf’: /tmp/petsc-n3SpCv/config.libraries/conftest.c:5:74: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] static void _check_erf() { double (*checkErf)(double) = erf;double x = 0,y; y = (*checkErf)(x); } ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_erf() { double (*checkErf)(double) = erf;double x = 0,y; y = (*checkErf)(x); } int main() { _check_erf();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBM" to "1" Popping language C erf() found Defined "HAVE_ERF" to "1" ================================================================================ TEST checkMathTgamma from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:292) TESTING: checkMathTgamma from config.libraries(config/BuildSystem/config/libraries.py:292) Check for tgamma() in libm, the math library Checking for functions [tgamma] in library ['libm.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c: In function ‘_check_tgamma’: /tmp/petsc-n3SpCv/config.libraries/conftest.c:5:83: warning: variable ‘y’ set but not used [-Wunused-but-set-variable] static void _check_tgamma() { double (*checkTgamma)(double) = tgamma;double x = 0,y; y = (*checkTgamma)(x); } ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_tgamma() { double (*checkTgamma)(double) = tgamma;double x = 0,y; y = (*checkTgamma)(x); } int main() { _check_tgamma();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBM" to "1" Popping language C tgamma() found Defined "HAVE_TGAMMA" to "1" ================================================================================ TEST checkMathFenv from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:301) TESTING: checkMathFenv from config.libraries(config/BuildSystem/config/libraries.py:301) Checks if can be used with FE_DFL_ENV Checking for functions [fesetenv] in library ['libm.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_fesetenv() { fesetenv(FE_DFL_ENV);; } int main() { _check_fesetenv();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBM" to "1" Popping language C Defined "HAVE_FENV_H" to "1" ================================================================================ TEST checkMathLog2 from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:309) TESTING: checkMathLog2 from config.libraries(config/BuildSystem/config/libraries.py:309) Check for log2() in libm, the math library Checking for functions [log2] in library ['libm.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c: In function ‘_check_log2’: /tmp/petsc-n3SpCv/config.libraries/conftest.c:5:81: warning: unused variable ‘y’ [-Wunused-variable] static void _check_log2() { double (*checkLog2)(double) = log2; double x = 2.5, y = (*checkLog2)(x); } ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_log2() { double (*checkLog2)(double) = log2; double x = 2.5, y = (*checkLog2)(x); } int main() { _check_log2();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBM" to "1" Popping language C log2() found Defined "HAVE_LOG2" to "1" ================================================================================ TEST checkRealtime from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:318) TESTING: checkRealtime from config.libraries(config/BuildSystem/config/libraries.py:318) Check for presence of clock_gettime() in realtime library (POSIX Realtime extensions) Checking for functions [clock_gettime] in library [''] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_clock_gettime() { struct timespec tp; clock_gettime(CLOCK_REALTIME,&tp);; } int main() { _check_clock_gettime();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'clock_gettime' collect2: error: ld returned 1 exit status Popping language C Checking for functions [clock_gettime] in library ['rt'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_clock_gettime() { struct timespec tp; clock_gettime(CLOCK_REALTIME,&tp);; } int main() { _check_clock_gettime();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lrt -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBRT" to "1" Popping language C Using librt for the realtime library ================================================================================ TEST checkDynamic from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:334) TESTING: checkDynamic from config.libraries(config/BuildSystem/config/libraries.py:334) Check for the header and libraries necessary for dynamic library manipulation Checking for functions [dlopen] in library ['dl'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dlopen(); static void _check_dlopen() { dlopen(); } int main() { _check_dlopen();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -ldl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBDL" to "1" Popping language C Checking for header: dlfcn.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/dlfcn.h" 1 3 4 # 23 "/usr/include/dlfcn.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/dlfcn.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 26 "/usr/include/dlfcn.h" 2 3 4 # 1 "/usr/include/bits/dlfcn.h" 1 3 4 # 29 "/usr/include/dlfcn.h" 2 3 4 # 53 "/usr/include/dlfcn.h" 3 4 extern void *dlopen (__const char *__file, int __mode) __attribute__ ((__nothrow__)); extern int dlclose (void *__handle) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void *dlsym (void *__restrict __handle, __const char *__restrict __name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 83 "/usr/include/dlfcn.h" 3 4 extern char *dlerror (void) __attribute__ ((__nothrow__)); # 189 "/usr/include/dlfcn.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_DLFCN_H" to "1" ================================================================================ TEST configureLibraryOptions from PETSc.options.libraryOptions(/global/home/thl/petsc/config/PETSc/options/libraryOptions.py:37) TESTING: configureLibraryOptions from PETSc.options.libraryOptions(config/PETSc/options/libraryOptions.py:37) Sets PETSC_USE_DEBUG, PETSC_USE_INFO, PETSC_USE_LOG, PETSC_USE_CTABLE and PETSC_USE_FORTRAN_KERNELS Defined "USE_LOG" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -qversion Defined "USE_MALLOC_COALESCED" to "1" Defined "USE_INFO" to "1" Defined "USE_CTABLE" to "1" Defined "USE_BACKWARD_LOOP" to "1" **********Checking if running on BGL/IBM detected Checking for functions [bgl_perfctr_void] in library [''] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char bgl_perfctr_void(); static void _check_bgl_perfctr_void() { bgl_perfctr_void(); } int main() { _check_bgl_perfctr_void();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'bgl_perfctr_void' collect2: error: ld returned 1 exit status Popping language C Checking for functions [ADIOI_BGL_Open] in library [''] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ADIOI_BGL_Open(); static void _check_ADIOI_BGL_Open() { ADIOI_BGL_Open(); } int main() { _check_ADIOI_BGL_Open();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'ADIOI_BGL_Open' collect2: error: ld returned 1 exit status Popping language C *********BGL/IBM test failure Defined "Alignx(a,b)" to " " ================================================================================ TEST configureISColorValueType from PETSc.options.libraryOptions(/global/home/thl/petsc/config/PETSc/options/libraryOptions.py:91) TESTING: configureISColorValueType from PETSc.options.libraryOptions(config/PETSc/options/libraryOptions.py:91) Sets PETSC_IS_COLOR_VALUE_TYPE, MPIU_COLORING_VALUE, IS_COLORING_MAX required by ISColor Defined "MPIU_COLORING_VALUE" to "MPI_UNSIGNED_SHORT" Defined "IS_COLORING_MAX" to "65535" Defined "IS_COLOR_VALUE_TYPE" to "short" Defined "IS_COLOR_VALUE_TYPE_F" to "integer2" ================================================================================ TEST configureCPURelax from config.atomics(/global/home/thl/petsc/config/BuildSystem/config/atomics.py:17) TESTING: configureCPURelax from config.atomics(config/BuildSystem/config/atomics.py:17) Definitions for cpu relax assembly instructions All intermediate test results are stored in /tmp/petsc-n3SpCv/config.atomics Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.atomics/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.atomics/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { asm volatile("rep; nop" ::: "memory");; return 0; } Defined "CPU_RELAX()" to "asm volatile("rep; nop" ::: "memory")" ================================================================================ TEST configureMemoryBarriers from config.atomics(/global/home/thl/petsc/config/BuildSystem/config/atomics.py:36) TESTING: configureMemoryBarriers from config.atomics(config/BuildSystem/config/atomics.py:36) Definitions for memory barrier instructions Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.atomics/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.atomics/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { asm volatile("mfence":::"memory"); return 0; } Defined "MEMORY_BARRIER()" to "asm volatile("mfence":::"memory")" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.atomics/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.atomics/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { asm volatile("lfence":::"memory"); return 0; } Defined "READ_MEMORY_BARRIER()" to "asm volatile("lfence":::"memory")" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.atomics/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.atomics/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { asm volatile("sfence":::"memory"); return 0; } Defined "WRITE_MEMORY_BARRIER()" to "asm volatile("sfence":::"memory")" ================================================================================ TEST checkMemcmp from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:110) TESTING: checkMemcmp from config.functions(config/BuildSystem/config/functions.py:110) Check for 8-bit clean memcmp Making executable to test memcmp() All intermediate test results are stored in /tmp/petsc-n3SpCv/config.functions Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.atomics -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void exit(int); int main() { char c0 = 0x40; char c1 = (char) 0x80; char c2 = (char) 0x81; exit(memcmp(&c0, &c2, 1) < 0 && memcmp(&c1, &c2, 1) < 0 ? 0 : 1); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.functions/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.functions/conftest Executing: /tmp/petsc-n3SpCv/config.functions/conftest ================================================================================ TEST checkSysinfo from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:135) TESTING: checkSysinfo from config.functions(config/BuildSystem/config/functions.py:135) Check whether sysinfo takes three arguments, and if it does define HAVE_SYSINFO_3ARG Checking for functions [sysinfo] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sysinfo(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sysinfo) || defined (__stub___sysinfo) sysinfo_will_always_fail_with_ENOSYS(); #else sysinfo(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_SYSINFO" to "1" Checking for header: linux/kernel.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/linux/kernel.h" 1 3 4 # 11 "/usr/include/linux/kernel.h" 3 4 struct sysinfo { long uptime; unsigned long loads[3]; unsigned long totalram; unsigned long freeram; unsigned long sharedram; unsigned long bufferram; unsigned long totalswap; unsigned long freeswap; unsigned short procs; unsigned short pad; unsigned long totalhigh; unsigned long freehigh; unsigned int mem_unit; char _f[20-2*sizeof(long)-sizeof(int)]; }; # 67 "/usr/include/linux/kernel.h" 3 4 struct module; void mark_hardware_unsupported(const char *msg); void mark_tech_preview(const char *msg, struct module *mod); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_LINUX_KERNEL_H" to "1" Checking for header: sys/sysinfo.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/sys/sysinfo.h" 1 3 4 # 22 "/usr/include/sys/sysinfo.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 23 "/usr/include/sys/sysinfo.h" 2 3 4 # 1 "/usr/include/linux/kernel.h" 1 3 4 # 11 "/usr/include/linux/kernel.h" 3 4 struct sysinfo { long uptime; unsigned long loads[3]; unsigned long totalram; unsigned long freeram; unsigned long sharedram; unsigned long bufferram; unsigned long totalswap; unsigned long freeswap; unsigned short procs; unsigned short pad; unsigned long totalhigh; unsigned long freehigh; unsigned int mem_unit; char _f[20-2*sizeof(long)-sizeof(int)]; }; # 67 "/usr/include/linux/kernel.h" 3 4 struct module; void mark_hardware_unsupported(const char *msg); void mark_tech_preview(const char *msg, struct module *mod); # 26 "/usr/include/sys/sysinfo.h" 2 3 4 extern int sysinfo (struct sysinfo *__info) __attribute__ ((__nothrow__)); extern int get_nprocs_conf (void) __attribute__ ((__nothrow__)); extern int get_nprocs (void) __attribute__ ((__nothrow__)); extern long int get_phys_pages (void) __attribute__ ((__nothrow__)); extern long int get_avphys_pages (void) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" Checking for header: sys/systeminfo.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^compilation terminated.: Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:13:4: error: #error "Cannot check sysinfo without special headers" # error "Cannot check sysinfo without special headers" ^ /tmp/petsc-n3SpCv/config.functions/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.functions/conftest.c:17:1: warning: implicit declaration of function ‘sysinfo’ [-Wimplicit-function-declaration] char buf[10]; long count=10; sysinfo(1, buf, count); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef HAVE_LINUX_KERNEL_H # include # include # ifdef HAVE_SYS_SYSINFO_H # include # endif #elif defined(HAVE_SYS_SYSTEMINFO_H) # include #else # error "Cannot check sysinfo without special headers" #endif int main() { char buf[10]; long count=10; sysinfo(1, buf, count); ; return 0; } Compile failed inside link ================================================================================ TEST checkVPrintf from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:158) TESTING: checkVPrintf from config.functions(config/BuildSystem/config/functions.py:158) Checks whether vprintf requires a char * last argument, and if it does defines HAVE_VPRINTF_CHAR Checking for functions [vprintf] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:13:6: warning: conflicting types for built-in function ‘vprintf’ char vprintf(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char vprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_vprintf) || defined (__stub___vprintf) vprintf_will_always_fail_with_ENOSYS(); #else vprintf(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_VPRINTF" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp; vprintf( "%d", Argp ); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl ================================================================================ TEST checkVFPrintf from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:165) TESTING: checkVFPrintf from config.functions(config/BuildSystem/config/functions.py:165) Checks whether vfprintf requires a char * last argument, and if it does defines HAVE_VFPRINTF_CHAR Checking for functions [vfprintf] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:13:6: warning: conflicting types for built-in function ‘vfprintf’ char vfprintf(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char vfprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_vfprintf) || defined (__stub___vfprintf) vfprintf_will_always_fail_with_ENOSYS(); #else vfprintf(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_VFPRINTF" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp; vfprintf(stdout, "%d", Argp ); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl ================================================================================ TEST checkVSNPrintf from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:172) TESTING: checkVSNPrintf from config.functions(config/BuildSystem/config/functions.py:172) Checks whether vsnprintf requires a char * last argument, and if it does defines HAVE_VSNPRINTF_CHAR Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.functions/conftest.c:6:1: warning: implicit declaration of function ‘_vsnprintf’ [-Wimplicit-function-declaration] _vsnprintf(0,0,0,0); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { _vsnprintf(0,0,0,0); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_vsnprintf' collect2: error: ld returned 1 exit status Checking for functions [vsnprintf] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:13:6: warning: conflicting types for built-in function ‘vsnprintf’ char vsnprintf(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char vsnprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_vsnprintf) || defined (__stub___vsnprintf) vsnprintf_will_always_fail_with_ENOSYS(); #else vsnprintf(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_VSNPRINTF" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp;char str[6]; vsnprintf(str,5, "%d", Argp ); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl ================================================================================ TEST checkNanosleep from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:206) TESTING: checkNanosleep from config.functions(config/BuildSystem/config/functions.py:206) Check for functional nanosleep() - as time.h behaves differently for different compiler flags - like -std=c89 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { struct timespec tp; tp.tv_sec = 0; tp.tv_nsec = (long)(1e9); nanosleep(&tp,0); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_NANOSLEEP" to "1" ================================================================================ TEST checkSignalHandlerType from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:182) TESTING: checkSignalHandlerType from config.functions(config/BuildSystem/config/functions.py:182) Checks the type of C++ signals handlers, and defines SIGNAL_CAST to the correct value Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.functions/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include static void myhandler(int sig) {} int main() { signal(SIGFPE,myhandler); ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "SIGNAL_CAST" to " " Popping language Cxx ================================================================================ TEST checkFreeReturnType from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:192) TESTING: checkFreeReturnType from config.functions(config/BuildSystem/config/functions.py:192) Checks whether free returns void or int, and defines HAVE_FREE_RETURN_INT Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.functions/conftest.c:6:25: error: void value not ignored as it ought to be int ierr; void *p; ierr = free(p); return 0; ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:6:5: warning: variable ‘ierr’ set but not used [-Wunused-but-set-variable] int ierr; void *p; ierr = free(p); return 0; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int ierr; void *p; ierr = free(p); return 0; ; return 0; } Compile failed inside link ================================================================================ TEST checkVariableArgumentLists from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:198) TESTING: checkVariableArgumentLists from config.functions(config/BuildSystem/config/functions.py:198) Checks whether the variable argument list functionality is working Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { va_list l1, l2; va_copy(l1, l2); return 0; ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_VA_COPY" to "1" ================================================================================ TEST checkClassify from config.functions(/global/home/thl/petsc/config/BuildSystem/config/functions.py:89) TESTING: checkClassify from config.functions(config/BuildSystem/config/functions.py:89) Recursive decompose to rapidly classify functions as found or missing To confirm that a function is missing, we require a compile/link failure with only that function in a compilation unit. In contrast, we can confirm that many functions are present by compiling them all together in a large compilation unit. We optimistically compile everything together, then trim all functions that were named in the error message and bisect the result. The trimming is only an optimization to increase the likelihood of a big-batch compile succeeding; we do not rely on the compiler naming missing functions. Checking for functions [rand getdomainname _sleep snprintf realpath dlsym bzero _getcwd getwd uname _lseek sleep _access lseek usleep dlclose gethostname clock get_nprocs access _snprintf dlerror mkstemp fork getpagesize sbreak memalign sigset getcwd gethostbyname gettimeofday readlink _set_output_format PXFGETARG sigaction strcasecmp dlopen drand48 socket memmove signal popen getrusage times _mkdir time sysctlbyname stricmp] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:16:6: warning: conflicting types for built-in function ‘snprintf’ char snprintf(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:19:6: warning: conflicting types for built-in function ‘bzero’ char bzero(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:36:6: warning: conflicting types for built-in function ‘fork’ char fork(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:48:6: warning: conflicting types for built-in function ‘strcasecmp’ char strcasecmp(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:52:6: warning: conflicting types for built-in function ‘memmove’ char memmove(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char rand(); char getdomainname(); char _sleep(); char snprintf(); char realpath(); char dlsym(); char bzero(); char _getcwd(); char getwd(); char uname(); char _lseek(); char sleep(); char _access(); char lseek(); char usleep(); char dlclose(); char gethostname(); char clock(); char get_nprocs(); char access(); char _snprintf(); char dlerror(); char mkstemp(); char fork(); char getpagesize(); char sbreak(); char memalign(); char sigset(); char getcwd(); char gethostbyname(); char gettimeofday(); char readlink(); char _set_output_format(); char PXFGETARG(); char sigaction(); char strcasecmp(); char dlopen(); char drand48(); char socket(); char memmove(); char signal(); char popen(); char getrusage(); char times(); char _mkdir(); char time(); char sysctlbyname(); char stricmp(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_rand) || defined (__stub___rand) rand_will_always_fail_with_ENOSYS(); #else rand(); #endif #if defined (__stub_getdomainname) || defined (__stub___getdomainname) getdomainname_will_always_fail_with_ENOSYS(); #else getdomainname(); #endif #if defined (__stub__sleep) || defined (__stub____sleep) _sleep_will_always_fail_with_ENOSYS(); #else _sleep(); #endif #if defined (__stub_snprintf) || defined (__stub___snprintf) snprintf_will_always_fail_with_ENOSYS(); #else snprintf(); #endif #if defined (__stub_realpath) || defined (__stub___realpath) realpath_will_always_fail_with_ENOSYS(); #else realpath(); #endif #if defined (__stub_dlsym) || defined (__stub___dlsym) dlsym_will_always_fail_with_ENOSYS(); #else dlsym(); #endif #if defined (__stub_bzero) || defined (__stub___bzero) bzero_will_always_fail_with_ENOSYS(); #else bzero(); #endif #if defined (__stub__getcwd) || defined (__stub____getcwd) _getcwd_will_always_fail_with_ENOSYS(); #else _getcwd(); #endif #if defined (__stub_getwd) || defined (__stub___getwd) getwd_will_always_fail_with_ENOSYS(); #else getwd(); #endif #if defined (__stub_uname) || defined (__stub___uname) uname_will_always_fail_with_ENOSYS(); #else uname(); #endif #if defined (__stub__lseek) || defined (__stub____lseek) _lseek_will_always_fail_with_ENOSYS(); #else _lseek(); #endif #if defined (__stub_sleep) || defined (__stub___sleep) sleep_will_always_fail_with_ENOSYS(); #else sleep(); #endif #if defined (__stub__access) || defined (__stub____access) _access_will_always_fail_with_ENOSYS(); #else _access(); #endif #if defined (__stub_lseek) || defined (__stub___lseek) lseek_will_always_fail_with_ENOSYS(); #else lseek(); #endif #if defined (__stub_usleep) || defined (__stub___usleep) usleep_will_always_fail_with_ENOSYS(); #else usleep(); #endif #if defined (__stub_dlclose) || defined (__stub___dlclose) dlclose_will_always_fail_with_ENOSYS(); #else dlclose(); #endif #if defined (__stub_gethostname) || defined (__stub___gethostname) gethostname_will_always_fail_with_ENOSYS(); #else gethostname(); #endif #if defined (__stub_clock) || defined (__stub___clock) clock_will_always_fail_with_ENOSYS(); #else clock(); #endif #if defined (__stub_get_nprocs) || defined (__stub___get_nprocs) get_nprocs_will_always_fail_with_ENOSYS(); #else get_nprocs(); #endif #if defined (__stub_access) || defined (__stub___access) access_will_always_fail_with_ENOSYS(); #else access(); #endif #if defined (__stub__snprintf) || defined (__stub____snprintf) _snprintf_will_always_fail_with_ENOSYS(); #else _snprintf(); #endif #if defined (__stub_dlerror) || defined (__stub___dlerror) dlerror_will_always_fail_with_ENOSYS(); #else dlerror(); #endif #if defined (__stub_mkstemp) || defined (__stub___mkstemp) mkstemp_will_always_fail_with_ENOSYS(); #else mkstemp(); #endif #if defined (__stub_fork) || defined (__stub___fork) fork_will_always_fail_with_ENOSYS(); #else fork(); #endif #if defined (__stub_getpagesize) || defined (__stub___getpagesize) getpagesize_will_always_fail_with_ENOSYS(); #else getpagesize(); #endif #if defined (__stub_sbreak) || defined (__stub___sbreak) sbreak_will_always_fail_with_ENOSYS(); #else sbreak(); #endif #if defined (__stub_memalign) || defined (__stub___memalign) memalign_will_always_fail_with_ENOSYS(); #else memalign(); #endif #if defined (__stub_sigset) || defined (__stub___sigset) sigset_will_always_fail_with_ENOSYS(); #else sigset(); #endif #if defined (__stub_getcwd) || defined (__stub___getcwd) getcwd_will_always_fail_with_ENOSYS(); #else getcwd(); #endif #if defined (__stub_gethostbyname) || defined (__stub___gethostbyname) gethostbyname_will_always_fail_with_ENOSYS(); #else gethostbyname(); #endif #if defined (__stub_gettimeofday) || defined (__stub___gettimeofday) gettimeofday_will_always_fail_with_ENOSYS(); #else gettimeofday(); #endif #if defined (__stub_readlink) || defined (__stub___readlink) readlink_will_always_fail_with_ENOSYS(); #else readlink(); #endif #if defined (__stub__set_output_format) || defined (__stub____set_output_format) _set_output_format_will_always_fail_with_ENOSYS(); #else _set_output_format(); #endif #if defined (__stub_PXFGETARG) || defined (__stub___PXFGETARG) PXFGETARG_will_always_fail_with_ENOSYS(); #else PXFGETARG(); #endif #if defined (__stub_sigaction) || defined (__stub___sigaction) sigaction_will_always_fail_with_ENOSYS(); #else sigaction(); #endif #if defined (__stub_strcasecmp) || defined (__stub___strcasecmp) strcasecmp_will_always_fail_with_ENOSYS(); #else strcasecmp(); #endif #if defined (__stub_dlopen) || defined (__stub___dlopen) dlopen_will_always_fail_with_ENOSYS(); #else dlopen(); #endif #if defined (__stub_drand48) || defined (__stub___drand48) drand48_will_always_fail_with_ENOSYS(); #else drand48(); #endif #if defined (__stub_socket) || defined (__stub___socket) socket_will_always_fail_with_ENOSYS(); #else socket(); #endif #if defined (__stub_memmove) || defined (__stub___memmove) memmove_will_always_fail_with_ENOSYS(); #else memmove(); #endif #if defined (__stub_signal) || defined (__stub___signal) signal_will_always_fail_with_ENOSYS(); #else signal(); #endif #if defined (__stub_popen) || defined (__stub___popen) popen_will_always_fail_with_ENOSYS(); #else popen(); #endif #if defined (__stub_getrusage) || defined (__stub___getrusage) getrusage_will_always_fail_with_ENOSYS(); #else getrusage(); #endif #if defined (__stub_times) || defined (__stub___times) times_will_always_fail_with_ENOSYS(); #else times(); #endif #if defined (__stub__mkdir) || defined (__stub____mkdir) _mkdir_will_always_fail_with_ENOSYS(); #else _mkdir(); #endif #if defined (__stub_time) || defined (__stub___time) time_will_always_fail_with_ENOSYS(); #else time(); #endif #if defined (__stub_sysctlbyname) || defined (__stub___sysctlbyname) sysctlbyname_will_always_fail_with_ENOSYS(); #else sysctlbyname(); #endif #if defined (__stub_stricmp) || defined (__stub___stricmp) stricmp_will_always_fail_with_ENOSYS(); #else stricmp(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_sleep' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_getcwd' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: warning: the `getwd' function is dangerous and should not be used. /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_lseek' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_access' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_snprintf' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'sbreak' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_set_output_format' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'PXFGETARG' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_mkdir' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'sysctlbyname' /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'stricmp' collect2: error: ld returned 1 exit status Checking for functions [rand getdomainname realpath dlsym bzero uname usleep dlclose gethostname clock get_nprocs dlerror mkstemp fork getpagesize] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:17:6: warning: conflicting types for built-in function ‘bzero’ char bzero(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:26:6: warning: conflicting types for built-in function ‘fork’ char fork(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char rand(); char getdomainname(); char realpath(); char dlsym(); char bzero(); char uname(); char usleep(); char dlclose(); char gethostname(); char clock(); char get_nprocs(); char dlerror(); char mkstemp(); char fork(); char getpagesize(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_rand) || defined (__stub___rand) rand_will_always_fail_with_ENOSYS(); #else rand(); #endif #if defined (__stub_getdomainname) || defined (__stub___getdomainname) getdomainname_will_always_fail_with_ENOSYS(); #else getdomainname(); #endif #if defined (__stub_realpath) || defined (__stub___realpath) realpath_will_always_fail_with_ENOSYS(); #else realpath(); #endif #if defined (__stub_dlsym) || defined (__stub___dlsym) dlsym_will_always_fail_with_ENOSYS(); #else dlsym(); #endif #if defined (__stub_bzero) || defined (__stub___bzero) bzero_will_always_fail_with_ENOSYS(); #else bzero(); #endif #if defined (__stub_uname) || defined (__stub___uname) uname_will_always_fail_with_ENOSYS(); #else uname(); #endif #if defined (__stub_usleep) || defined (__stub___usleep) usleep_will_always_fail_with_ENOSYS(); #else usleep(); #endif #if defined (__stub_dlclose) || defined (__stub___dlclose) dlclose_will_always_fail_with_ENOSYS(); #else dlclose(); #endif #if defined (__stub_gethostname) || defined (__stub___gethostname) gethostname_will_always_fail_with_ENOSYS(); #else gethostname(); #endif #if defined (__stub_clock) || defined (__stub___clock) clock_will_always_fail_with_ENOSYS(); #else clock(); #endif #if defined (__stub_get_nprocs) || defined (__stub___get_nprocs) get_nprocs_will_always_fail_with_ENOSYS(); #else get_nprocs(); #endif #if defined (__stub_dlerror) || defined (__stub___dlerror) dlerror_will_always_fail_with_ENOSYS(); #else dlerror(); #endif #if defined (__stub_mkstemp) || defined (__stub___mkstemp) mkstemp_will_always_fail_with_ENOSYS(); #else mkstemp(); #endif #if defined (__stub_fork) || defined (__stub___fork) fork_will_always_fail_with_ENOSYS(); #else fork(); #endif #if defined (__stub_getpagesize) || defined (__stub___getpagesize) getpagesize_will_always_fail_with_ENOSYS(); #else getpagesize(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_RAND" to "1" Defined "HAVE_GETDOMAINNAME" to "1" Defined "HAVE_REALPATH" to "1" Defined "HAVE_DLSYM" to "1" Defined "HAVE_BZERO" to "1" Defined "HAVE_UNAME" to "1" Defined "HAVE_USLEEP" to "1" Defined "HAVE_DLCLOSE" to "1" Defined "HAVE_GETHOSTNAME" to "1" Defined "HAVE_CLOCK" to "1" Defined "HAVE_GET_NPROCS" to "1" Defined "HAVE_DLERROR" to "1" Defined "HAVE_MKSTEMP" to "1" Defined "HAVE_FORK" to "1" Defined "HAVE_GETPAGESIZE" to "1" Checking for functions [memalign sigset gethostbyname gettimeofday readlink sigaction strcasecmp dlopen drand48 socket memmove signal popen getrusage times time] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:19:6: warning: conflicting types for built-in function ‘strcasecmp’ char strcasecmp(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:23:6: warning: conflicting types for built-in function ‘memmove’ char memmove(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char memalign(); char sigset(); char gethostbyname(); char gettimeofday(); char readlink(); char sigaction(); char strcasecmp(); char dlopen(); char drand48(); char socket(); char memmove(); char signal(); char popen(); char getrusage(); char times(); char time(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_memalign) || defined (__stub___memalign) memalign_will_always_fail_with_ENOSYS(); #else memalign(); #endif #if defined (__stub_sigset) || defined (__stub___sigset) sigset_will_always_fail_with_ENOSYS(); #else sigset(); #endif #if defined (__stub_gethostbyname) || defined (__stub___gethostbyname) gethostbyname_will_always_fail_with_ENOSYS(); #else gethostbyname(); #endif #if defined (__stub_gettimeofday) || defined (__stub___gettimeofday) gettimeofday_will_always_fail_with_ENOSYS(); #else gettimeofday(); #endif #if defined (__stub_readlink) || defined (__stub___readlink) readlink_will_always_fail_with_ENOSYS(); #else readlink(); #endif #if defined (__stub_sigaction) || defined (__stub___sigaction) sigaction_will_always_fail_with_ENOSYS(); #else sigaction(); #endif #if defined (__stub_strcasecmp) || defined (__stub___strcasecmp) strcasecmp_will_always_fail_with_ENOSYS(); #else strcasecmp(); #endif #if defined (__stub_dlopen) || defined (__stub___dlopen) dlopen_will_always_fail_with_ENOSYS(); #else dlopen(); #endif #if defined (__stub_drand48) || defined (__stub___drand48) drand48_will_always_fail_with_ENOSYS(); #else drand48(); #endif #if defined (__stub_socket) || defined (__stub___socket) socket_will_always_fail_with_ENOSYS(); #else socket(); #endif #if defined (__stub_memmove) || defined (__stub___memmove) memmove_will_always_fail_with_ENOSYS(); #else memmove(); #endif #if defined (__stub_signal) || defined (__stub___signal) signal_will_always_fail_with_ENOSYS(); #else signal(); #endif #if defined (__stub_popen) || defined (__stub___popen) popen_will_always_fail_with_ENOSYS(); #else popen(); #endif #if defined (__stub_getrusage) || defined (__stub___getrusage) getrusage_will_always_fail_with_ENOSYS(); #else getrusage(); #endif #if defined (__stub_times) || defined (__stub___times) times_will_always_fail_with_ENOSYS(); #else times(); #endif #if defined (__stub_time) || defined (__stub___time) time_will_always_fail_with_ENOSYS(); #else time(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MEMALIGN" to "1" Defined "HAVE_SIGSET" to "1" Defined "HAVE_GETHOSTBYNAME" to "1" Defined "HAVE_GETTIMEOFDAY" to "1" Defined "HAVE_READLINK" to "1" Defined "HAVE_SIGACTION" to "1" Defined "HAVE_STRCASECMP" to "1" Defined "HAVE_DLOPEN" to "1" Defined "HAVE_DRAND48" to "1" Defined "HAVE_SOCKET" to "1" Defined "HAVE_MEMMOVE" to "1" Defined "HAVE_SIGNAL" to "1" Defined "HAVE_POPEN" to "1" Defined "HAVE_GETRUSAGE" to "1" Defined "HAVE_TIMES" to "1" Defined "HAVE_TIME" to "1" Checking for functions [_sleep] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _sleep(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__sleep) || defined (__stub____sleep) _sleep_will_always_fail_with_ENOSYS(); #else _sleep(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_sleep' collect2: error: ld returned 1 exit status Checking for functions [snprintf] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:13:6: warning: conflicting types for built-in function ‘snprintf’ char snprintf(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char snprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_snprintf) || defined (__stub___snprintf) snprintf_will_always_fail_with_ENOSYS(); #else snprintf(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_SNPRINTF" to "1" Checking for functions [_getcwd] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _getcwd(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__getcwd) || defined (__stub____getcwd) _getcwd_will_always_fail_with_ENOSYS(); #else _getcwd(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_getcwd' collect2: error: ld returned 1 exit status Checking for functions [getwd] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char getwd(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_getwd) || defined (__stub___getwd) getwd_will_always_fail_with_ENOSYS(); #else getwd(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: warning: the `getwd' function is dangerous and should not be used. Defined "HAVE_GETWD" to "1" Checking for functions [_lseek] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _lseek(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__lseek) || defined (__stub____lseek) _lseek_will_always_fail_with_ENOSYS(); #else _lseek(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_lseek' collect2: error: ld returned 1 exit status Checking for functions [sleep] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sleep(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sleep) || defined (__stub___sleep) sleep_will_always_fail_with_ENOSYS(); #else sleep(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_SLEEP" to "1" Checking for functions [_access] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _access(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__access) || defined (__stub____access) _access_will_always_fail_with_ENOSYS(); #else _access(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_access' collect2: error: ld returned 1 exit status Checking for functions [lseek] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char lseek(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_lseek) || defined (__stub___lseek) lseek_will_always_fail_with_ENOSYS(); #else lseek(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LSEEK" to "1" Checking for functions [access] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char access(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_access) || defined (__stub___access) access_will_always_fail_with_ENOSYS(); #else access(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_ACCESS" to "1" Checking for functions [_snprintf] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _snprintf(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__snprintf) || defined (__stub____snprintf) _snprintf_will_always_fail_with_ENOSYS(); #else _snprintf(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_snprintf' collect2: error: ld returned 1 exit status Checking for functions [sbreak] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sbreak(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sbreak) || defined (__stub___sbreak) sbreak_will_always_fail_with_ENOSYS(); #else sbreak(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'sbreak' collect2: error: ld returned 1 exit status Checking for functions [getcwd] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char getcwd(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_getcwd) || defined (__stub___getcwd) getcwd_will_always_fail_with_ENOSYS(); #else getcwd(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_GETCWD" to "1" Checking for functions [_set_output_format] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _set_output_format(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__set_output_format) || defined (__stub____set_output_format) _set_output_format_will_always_fail_with_ENOSYS(); #else _set_output_format(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_set_output_format' collect2: error: ld returned 1 exit status Checking for functions [PXFGETARG] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char PXFGETARG(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_PXFGETARG) || defined (__stub___PXFGETARG) PXFGETARG_will_always_fail_with_ENOSYS(); #else PXFGETARG(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'PXFGETARG' collect2: error: ld returned 1 exit status Checking for functions [_mkdir] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _mkdir(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__mkdir) || defined (__stub____mkdir) _mkdir_will_always_fail_with_ENOSYS(); #else _mkdir(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to '_mkdir' collect2: error: ld returned 1 exit status Checking for functions [sysctlbyname] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char sysctlbyname(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_sysctlbyname) || defined (__stub___sysctlbyname) sysctlbyname_will_always_fail_with_ENOSYS(); #else sysctlbyname(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'sysctlbyname' collect2: error: ld returned 1 exit status Checking for functions [stricmp] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char stricmp(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_stricmp) || defined (__stub___stricmp) stricmp_will_always_fail_with_ENOSYS(); #else stricmp(); #endif ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'stricmp' collect2: error: ld returned 1 exit status ================================================================================ TEST configureMemorySize from config.utilities.getResidentSetSize(/global/home/thl/petsc/config/BuildSystem/config/utilities/getResidentSetSize.py:31) TESTING: configureMemorySize from config.utilities.getResidentSetSize(config/BuildSystem/config/utilities/getResidentSetSize.py:31) Try to determine how to measure the memory usage Defined "USE_PROC_FOR_SIZE" to "1" Using /proc for PetscMemoryGetCurrentUsage() ================================================================================ TEST configureFortranCommandLine from config.utilities.fortranCommandLine(/global/home/thl/petsc/config/BuildSystem/config/utilities/fortranCommandLine.py:27) TESTING: configureFortranCommandLine from config.utilities.fortranCommandLine(config/BuildSystem/config/utilities/fortranCommandLine.py:27) Check for the mechanism to retrieve command line arguments in Fortran Defined "HAVE_FORTRAN_GET_COMMAND_ARGUMENT" to "1" Pushing language FC Checking for functions [] in library [''] [] Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.F90 Successful compile: Source: program main integer i character*(80) arg i = command_argument_count() call get_command_argument(i,arg) end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language FC Popping language FC Pushing language C Defined "HAVE_GFORTRAN_IARGC" to "1" Popping language C Checking for functions [get_command_argument_] in library [''] ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char get_command_argument_(); static void _check_get_command_argument_() { get_command_argument_(); } int main() { _check_get_command_argument_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'get_command_argument_' collect2: error: ld returned 1 exit status Popping language C Checking for functions [getarg_] in library [''] ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', 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'-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char getarg_(); static void _check_getarg_() { getarg_(); } int main() { _check_getarg_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'getarg_' collect2: error: ld returned 1 exit status Popping language C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Popping language C Pushing language C Popping language C Checking for functions [ipxfargc_] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char ipxfargc_(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_ipxfargc_) || defined (__stub___ipxfargc_) ipxfargc__will_always_fail_with_ENOSYS(); #else ipxfargc_(); #endif ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'ipxfargc_' collect2: error: ld returned 1 exit status Checking for functions [f90_unix_MP_iargc] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char f90_unix_MP_iargc(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_f90_unix_MP_iargc) || defined (__stub___f90_unix_MP_iargc) f90_unix_MP_iargc_will_always_fail_with_ENOSYS(); #else f90_unix_MP_iargc(); #endif ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'f90_unix_MP_iargc' collect2: error: ld returned 1 exit status Checking for functions [PXFGETARG] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char PXFGETARG(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_PXFGETARG) || defined (__stub___PXFGETARG) PXFGETARG_will_always_fail_with_ENOSYS(); #else PXFGETARG(); #endif ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'PXFGETARG' collect2: error: ld returned 1 exit status Checking for functions [iargc_] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char iargc_(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_iargc_) || defined (__stub___iargc_) iargc__will_always_fail_with_ENOSYS(); #else iargc_(); #endif ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.o:conftest.c:function main: error: undefined reference to 'iargc_' collect2: error: ld returned 1 exit status Checking for functions [GETARG@16] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.functions/conftest.c:13:12: error: stray ‘@’ in program char GETARG@16(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:13:13: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before numeric constant char GETARG@16(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.functions/conftest.c:21:27: error: missing ')' after "defined" #if defined (__stub_GETARG@16) || defined (__stub___GETARG@16) ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:21:28: error: missing binary operator before token "16" #if defined (__stub_GETARG@16) || defined (__stub___GETARG@16) ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:24:7: error: stray ‘@’ in program GETARG@16(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:24:1: error: ‘GETARG’ undeclared (first use in this function) GETARG@16(); ^ /tmp/petsc-n3SpCv/config.functions/conftest.c:24:1: note: each undeclared identifier is reported only once for each function it appears in /tmp/petsc-n3SpCv/config.functions/conftest.c:24:8: error: expected ‘;’ before numeric constant GETARG@16(); ^ Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char GETARG@16(); #ifdef __cplusplus } #endif int main() { #if defined (__stub_GETARG@16) || defined (__stub___GETARG@16) GETARG@16_will_always_fail_with_ENOSYS(); #else GETARG@16(); #endif ; return 0; } Compile failed inside link Checking for functions [_gfortran_iargc] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.functions/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* System header to define __stub macros and hopefully no other prototypes since they would conflict with our 'char funcname()' declaration below. */ #include /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif /* We use char because int might match the return type of a gcc2 builtin and then its argument prototype would still apply. */ char _gfortran_iargc(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__gfortran_iargc) || defined (__stub____gfortran_iargc) _gfortran_iargc_will_always_fail_with_ENOSYS(); #else _gfortran_iargc(); #endif ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.functions/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.functions/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath Defined "HAVE__GFORTRAN_IARGC" to "1" ================================================================================ TEST configureFeatureTestMacros from config.utilities.featureTestMacros(/global/home/thl/petsc/config/BuildSystem/config/utilities/featureTestMacros.py:13) TESTING: configureFeatureTestMacros from config.utilities.featureTestMacros(config/BuildSystem/config/utilities/featureTestMacros.py:13) Checks if certain feature test macros are support All intermediate test results are stored in /tmp/petsc-n3SpCv/config.utilities.featureTestMacros Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.c:4:20: fatal error: sysctl.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define _BSD_SOURCE #include int main() { ; return 0; } Defined "_BSD_SOURCE" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define _DEFAULT_SOURCE #include int main() { ; return 0; } Defined "_DEFAULT_SOURCE" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.featureTestMacros/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define _GNU_SOURCE #include int main() { cpu_set_t mset; CPU_ZERO(&mset);; return 0; } Defined "_GNU_SOURCE" to "1" ================================================================================ TEST configureMissingDefines from config.utilities.missing(/global/home/thl/petsc/config/BuildSystem/config/utilities/missing.py:57) TESTING: configureMissingDefines from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:57) Checks for limits All intermediate test results are stored in /tmp/petsc-n3SpCv/config.utilities.missing Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_LIMITS_H #include #endif int main() { int i=INT_MAX; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_FLOAT_H #include #endif int main() { double d=DBL_MAX; if (d); ; return 0; } ================================================================================ TEST configureMissingUtypeTypedefs from config.utilities.missing(/global/home/thl/petsc/config/BuildSystem/config/utilities/missing.py:67) TESTING: configureMissingUtypeTypedefs from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:67) Checks if u_short is undefined Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c:6:9: warning: unused variable ‘foo’ [-Wunused-variable] u_short foo; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { u_short foo; ; return 0; } ================================================================================ TEST configureMissingFunctions from config.utilities.missing(/global/home/thl/petsc/config/BuildSystem/config/utilities/missing.py:73) TESTING: configureMissingFunctions from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:73) Checks for SOCKETS ================================================================================ TEST configureMissingSignals from config.utilities.missing(/global/home/thl/petsc/config/BuildSystem/config/utilities/missing.py:93) TESTING: configureMissingSignals from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:93) Check for missing signals, and define MISSING_ if necessary Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGABRT; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGALRM; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGBUS; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGCHLD; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGCONT; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGFPE; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGHUP; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGILL; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGINT; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGKILL; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGPIPE; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGQUIT; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSEGV; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSTOP; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSYS; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTERM; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTRAP; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTSTP; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGURG; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGUSR1; if (i); ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGUSR2; if (i); ; return 0; } ================================================================================ TEST configureMissingGetdomainnamePrototype from config.utilities.missing(/global/home/thl/petsc/config/BuildSystem/config/utilities/missing.py:110) TESTING: configureMissingGetdomainnamePrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:110) Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if !defined(_BSD_SOURCE) #define _BSD_SOURCE #endif #if !defined(_DEFAULT_SOURCE) #define _DEFAULT_SOURCE #endif #if !defined(_GNU_SOURCE) #define _GNU_SOURCE #endif #ifdef PETSC_HAVE_UNISTD_H #include #endif #ifdef PETSC_HAVE_NETDB_H #include #endif int main() { int (*getdomainname_ptr)(char*,size_t) = getdomainname; char test[10]; if (getdomainname_ptr(test,10)) return 1; ; return 0; } Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.utilities.missing/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if !defined(_BSD_SOURCE) #define _BSD_SOURCE #endif #if !defined(_DEFAULT_SOURCE) #define _DEFAULT_SOURCE #endif #if !defined(_GNU_SOURCE) #define _GNU_SOURCE #endif #ifdef PETSC_HAVE_UNISTD_H #include #endif #ifdef PETSC_HAVE_NETDB_H #include #endif int main() { int (*getdomainname_ptr)(char*,size_t) = getdomainname; char test[10]; if (getdomainname_ptr(test,10)) return 1; ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language Cxx ================================================================================ TEST configureMissingSrandPrototype from config.utilities.missing(/global/home/thl/petsc/config/BuildSystem/config/utilities/missing.py:135) TESTING: configureMissingSrandPrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:135) Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if !defined(_BSD_SOURCE) #define _BSD_SOURCE #endif #if !defined(_DEFAULT_SOURCE) #define _DEFAULT_SOURCE #endif #if !defined(_GNU_SOURCE) #define _GNU_SOURCE #endif #ifdef PETSC_HAVE_STDLIB_H #include #endif int main() { double (*drand48_ptr)(void) = drand48; void (*srand48_ptr)(long int) = srand48; long int seed=10; srand48_ptr(seed); if (drand48_ptr() > 0.5) return 1; ; return 0; } Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.utilities.missing/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if !defined(_BSD_SOURCE) #define _BSD_SOURCE #endif #if !defined(_DEFAULT_SOURCE) #define _DEFAULT_SOURCE #endif #if !defined(_GNU_SOURCE) #define _GNU_SOURCE #endif #ifdef PETSC_HAVE_STDLIB_H #include #endif int main() { double (*drand48_ptr)(void) = drand48; void (*srand48_ptr)(long int) = srand48; long int seed=10; srand48_ptr(seed); if (drand48_ptr() > 0.5) return 1; ; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.utilities.missing/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.utilities.missing/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language Cxx ================================================================================ TEST configureFPTrap from config.utilities.FPTrap(/global/home/thl/petsc/config/BuildSystem/config/utilities/FPTrap.py:27) TESTING: configureFPTrap from config.utilities.FPTrap(config/BuildSystem/config/utilities/FPTrap.py:27) Checking the handling of floating point traps Checking for header: sigfpe.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory #include ^compilation terminated.: Checking for header: fpxcp.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory #include ^compilation terminated.: Checking for header: floatingpoint.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST configureScalarType from PETSc.options.scalarTypes(/global/home/thl/petsc/config/PETSc/options/scalarTypes.py:37) TESTING: configureScalarType from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:37) Choose between real and complex numbers Defined "USE_SCALAR_REAL" to "1" Scalar type is real Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv/PETSc.options.scalarTypes Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.utilities.missing -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable ‘a’ [-Wunused-variable] double b = 2.0; int a = isnormal(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isnormal(b); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_ISNORMAL" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable ‘a’ [-Wunused-variable] double b = 2.0; int a = isnan(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isnan(b); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_ISNAN" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable ‘a’ [-Wunused-variable] double b = 2.0; int a = isinf(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isinf(b); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_ISINF" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:1: warning: implicit declaration of function ‘_isnan’ [-Wimplicit-function-declaration] double b = 2.0;int a = _isnan(b); ^ /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:20: warning: unused variable ‘a’ [-Wunused-variable] double b = 2.0;int a = _isnan(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0;int a = _isnan(b); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o:conftest.c:function main: error: undefined reference to '_isnan' collect2: error: ld returned 1 exit status Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:1: warning: implicit declaration of function ‘_finite’ [-Wimplicit-function-declaration] double b = 2.0;int a = _finite(b); ^ /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.c:6:20: warning: unused variable ‘a’ [-Wunused-variable] double b = 2.0;int a = _finite(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0;int a = _finite(b); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/PETSc.options.scalarTypes/conftest.o:conftest.c:function main: error: undefined reference to '_finite' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST configurePrecision from PETSc.options.scalarTypes(/global/home/thl/petsc/config/PETSc/options/scalarTypes.py:77) TESTING: configurePrecision from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:77) Set the default real number precision for PETSc objects Defined "USE_REAL_DOUBLE" to "1" Defined make macro "PETSC_SCALAR_SIZE" to "64" Precision is double ================================================================================ TEST configureMkdir from config.programs(/global/home/thl/petsc/config/BuildSystem/config/programs.py:23) TESTING: configureMkdir from config.programs(config/BuildSystem/config/programs.py:23) Make sure we can have mkdir automatically make intermediate directories Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/mkdir...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/mkdir...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/mkdir...not found Checking for program /usr/lib64/qt-3.3/bin/mkdir...not found Checking for program /usr/local/bin/mkdir...not found Checking for program /bin/mkdir...found Executing: /bin/mkdir -p .conftest/tmp Adding -p flag to /bin/mkdir -p to automatically create directories Defined make macro "MKDIR" to "/bin/mkdir -p" ================================================================================ TEST configureAutoreconf from config.programs(/global/home/thl/petsc/config/BuildSystem/config/programs.py:45) TESTING: configureAutoreconf from config.programs(config/BuildSystem/config/programs.py:45) Check for autoreconf Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/autoreconf...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/autoreconf...not found Checking for program /usr/lib64/qt-3.3/bin/autoreconf...not found Checking for program /usr/local/bin/autoreconf...not found Checking for program /bin/autoreconf...not found Checking for program /usr/bin/autoreconf...found All intermediate test results are stored in /tmp/petsc-n3SpCv/config.programs Executing: cd /tmp/petsc-n3SpCv/config.programs/autoconfdir&&/usr/bin/autoreconf autoreconf test successful! Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/libtoolize...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/libtoolize...not found Checking for program /usr/lib64/qt-3.3/bin/libtoolize...not found Checking for program /usr/local/bin/libtoolize...not found Checking for program /bin/libtoolize...not found Checking for program /usr/bin/libtoolize...found ================================================================================ TEST configurePrograms from config.programs(/global/home/thl/petsc/config/BuildSystem/config/programs.py:72) TESTING: configurePrograms from config.programs(config/BuildSystem/config/programs.py:72) Check for the programs needed to build and run PETSc Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/sh...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/sh...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/sh...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/sh...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/sh...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/sh...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/sh...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/sh...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/sh...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/sh...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/sh...not found Checking for program /usr/lib64/qt-3.3/bin/sh...not found Checking for program /usr/local/bin/sh...not found Checking for program /bin/sh...found Defined make macro "SHELL" to "/bin/sh" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/sed...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/sed...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/sed...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/sed...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/sed...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/sed...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/sed...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/sed...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/sed...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/sed...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/sed...not found Checking for program /usr/lib64/qt-3.3/bin/sed...not found Checking for program /usr/local/bin/sed...not found Checking for program /bin/sed...found Defined make macro "SED" to "/bin/sed" Executing: /bin/sed -i s/sed/sd/g "/tmp/petsc-n3SpCv/config.programs/sed1" Adding SEDINPLACE cmd: /bin/sed -i Defined make macro "SEDINPLACE" to "/bin/sed -i" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/mv...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/mv...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/mv...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/mv...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/mv...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mv...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/mv...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/mv...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/mv...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/mv...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/mv...not found Checking for program /usr/lib64/qt-3.3/bin/mv...not found Checking for program /usr/local/bin/mv...not found Checking for program /bin/mv...found Defined make macro "MV" to "/bin/mv" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/cp...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/cp...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/cp...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/cp...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/cp...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/cp...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/cp...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/cp...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/cp...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/cp...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/cp...not found Checking for program /usr/lib64/qt-3.3/bin/cp...not found Checking for program /usr/local/bin/cp...not found Checking for program /bin/cp...found Defined make macro "CP" to "/bin/cp" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/grep...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/grep...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/grep...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/grep...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/grep...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/grep...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/grep...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/grep...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/grep...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/grep...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/grep...not found Checking for program /usr/lib64/qt-3.3/bin/grep...not found Checking for program /usr/local/bin/grep...not found Checking for program /bin/grep...found Defined make macro "GREP" to "/bin/grep" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/rm...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/rm...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/rm...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/rm...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/rm...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/rm...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/rm...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/rm...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/rm...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/rm...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/rm...not found Checking for program /usr/lib64/qt-3.3/bin/rm...not found Checking for program /usr/local/bin/rm...not found Checking for program /bin/rm...found Defined make macro "RM" to "/bin/rm -f" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/diff...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/diff...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/diff...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/diff...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/diff...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/diff...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/diff...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/diff...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/diff...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/diff...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/diff...not found Checking for program /usr/lib64/qt-3.3/bin/diff...not found Checking for program /usr/local/bin/diff...not found Checking for program /bin/diff...not found Checking for program /usr/bin/diff...found Executing: "/usr/bin/diff" -w "/tmp/petsc-n3SpCv/config.programs/diff1" "/tmp/petsc-n3SpCv/config.programs/diff2" Defined make macro "DIFF" to "/usr/bin/diff -w" Checking for program /usr/ucb/ps...not found Checking for program /usr/usb/ps...not found Checking for program /home/thl/ps...not found Checking for program /home/thl/petsc/bin/win32fe/ps...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/gzip...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/gzip...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gzip...not found Checking for program /usr/lib64/qt-3.3/bin/gzip...not found Checking for program /usr/local/bin/gzip...not found Checking for program /bin/gzip...found Defined make macro "GZIP" to "/bin/gzip" Defined "HAVE_GZIP" to "1" Defined make macro "PYTHON" to "/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/python" Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/m4...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/m4...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/m4...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/m4...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/m4...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/m4...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/m4...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/m4...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/m4...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/m4...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/m4...not found Checking for program /usr/lib64/qt-3.3/bin/m4...not found Checking for program /usr/local/bin/m4...not found Checking for program /bin/m4...not found Checking for program /usr/bin/m4...found Defined make macro "M4" to "/usr/bin/m4" ================================================================================ TEST configureMake from config.packages.make(/global/home/thl/petsc/config/BuildSystem/config/packages/make.py:82) TESTING: configureMake from config.packages.make(config/BuildSystem/config/packages/make.py:82) Check for user specified make - or gmake, make Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/gmake...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/gmake...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/gmake...not found Checking for program /usr/lib64/qt-3.3/bin/gmake...not found Checking for program /usr/local/bin/gmake...not found Checking for program /bin/gmake...not found Checking for program /usr/bin/gmake...found Defined make macro "MAKE" to "/usr/bin/gmake" Executing: /usr/bin/gmake --version stdout: GNU Make 3.81 Copyright (C) 2006 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. This program built for x86_64-redhat-linux-gnu ================================================================================ TEST configureCheckGNUMake from config.packages.make(/global/home/thl/petsc/config/BuildSystem/config/packages/make.py:119) TESTING: configureCheckGNUMake from config.packages.make(config/BuildSystem/config/packages/make.py:119) Setup other GNU make stuff Executing: /usr/bin/gmake --version stdout: GNU Make 3.81 Copyright (C) 2006 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. This program built for x86_64-redhat-linux-gnu Defined make macro "MAKE_IS_GNUMAKE" to "1" Defined make rule "libc" with dependencies "${LIBNAME}(${OBJSC})" and code [] Defined make rule "libcxx" with dependencies "${LIBNAME}(${OBJSCXX})" and code [] Defined make rule "libcu" with dependencies "${LIBNAME}(${OBJSCU})" and code [] Defined make rule "libf" with dependencies "${OBJSF}" and code -${AR} ${AR_FLAGS} ${LIBNAME} ${OBJSF} ================================================================================ TEST configureMakeNP from config.packages.make(/global/home/thl/petsc/config/BuildSystem/config/packages/make.py:157) TESTING: configureMakeNP from config.packages.make(config/BuildSystem/config/packages/make.py:157) check no of cores on the build machine [perhaps to do make '-j ncores'] module multiprocessing found 12 cores: using make_np = 10 Defined make macro "MAKE_NP" to "10" Defined make macro "NPMAX" to "12" Defined make macro "OMAKE_PRINTDIR " to "/usr/bin/gmake --print-directory" Defined make macro "OMAKE" to "/usr/bin/gmake --no-print-directory" Defined make macro "MAKE_PAR_OUT_FLG" to "" ================================================================================ TEST alternateConfigureLibrary from config.packages.OpenMPI(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.OpenMPI(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Executing: uname -s stdout: Linux Executing: uname -s stdout: Linux Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -V ================================================================================ TEST alternateConfigureLibrary from config.packages.MPICH(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.MPICH(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.MPI(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:488) TESTING: configureLibrary from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:488) Calls the regular package configureLibrary and then does an additional test needed by MPI ================================================================================== Checking for a functional MPI Checking for library in Compiler specific search MPI: [] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [MPI_Init MPI_Comm_create] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Init(); static void _check_MPI_Init() { MPI_Init(); } char MPI_Comm_create(); static void _check_MPI_Comm_create() { MPI_Comm_create(); } int main() { _check_MPI_Init(); _check_MPI_Comm_create();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language C Checking for headers Compiler specific search MPI: ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['mpi.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 1 # 225 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 226 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 258 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi_portable_platform.h" 1 # 259 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 323 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef ptrdiff_t MPI_Aint; typedef long long MPI_Offset; typedef long long MPI_Count; typedef struct ompi_communicator_t *MPI_Comm; typedef struct ompi_datatype_t *MPI_Datatype; typedef struct ompi_errhandler_t *MPI_Errhandler; typedef struct ompi_file_t *MPI_File; typedef struct ompi_group_t *MPI_Group; typedef struct ompi_info_t *MPI_Info; typedef struct ompi_op_t *MPI_Op; typedef struct ompi_request_t *MPI_Request; typedef struct ompi_message_t *MPI_Message; typedef struct ompi_status_public_t MPI_Status; typedef struct ompi_win_t *MPI_Win; typedef struct mca_base_var_enum_t *MPI_T_enum; typedef struct ompi_mpit_cvar_handle_t *MPI_T_cvar_handle; typedef struct mca_base_pvar_handle_t *MPI_T_pvar_handle; typedef struct mca_base_pvar_session_t *MPI_T_pvar_session; struct ompi_status_public_t { int MPI_SOURCE; int MPI_TAG; int MPI_ERROR; int _cancelled; size_t _ucount; }; typedef struct ompi_status_public_t ompi_status_public_t; # 370 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef int (MPI_Copy_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Delete_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Datarep_extent_function)(MPI_Datatype, MPI_Aint *, void *); typedef int (MPI_Datarep_conversion_function)(void *, MPI_Datatype, int, void *, MPI_Offset, void *); typedef void (MPI_Comm_errhandler_function)(MPI_Comm *, int *, ...); typedef MPI_Comm_errhandler_function MPI_Comm_errhandler_fn __attribute__((__deprecated__("MPI_Comm_errhandler_fn was deprecated in MPI-2.2; use MPI_Comm_errhandler_function instead"))); typedef void (ompi_file_errhandler_fn)(MPI_File *, int *, ...); typedef ompi_file_errhandler_fn MPI_File_errhandler_fn __attribute__((__deprecated__("MPI_File_errhandler_fn was deprecated in MPI-2.2; use MPI_File_errhandler_function instead"))); typedef ompi_file_errhandler_fn MPI_File_errhandler_function; typedef void (MPI_Win_errhandler_function)(MPI_Win *, int *, ...); typedef MPI_Win_errhandler_function MPI_Win_errhandler_fn __attribute__((__deprecated__("MPI_Win_errhandler_fn was deprecated in MPI-2.2; use MPI_Win_errhandler_function instead"))); typedef void (MPI_Handler_function)(MPI_Comm *, int *, ...); typedef void (MPI_User_function)(void *, void *, int *, MPI_Datatype *); typedef int (MPI_Comm_copy_attr_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Comm_delete_attr_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Type_copy_attr_function)(MPI_Datatype, int, void *, void *, void *, int *); typedef int (MPI_Type_delete_attr_function)(MPI_Datatype, int, void *, void *); typedef int (MPI_Win_copy_attr_function)(MPI_Win, int, void *, void *, void *, int *); typedef int (MPI_Win_delete_attr_function)(MPI_Win, int, void *, void *); typedef int (MPI_Grequest_query_function)(void *, MPI_Status *); typedef int (MPI_Grequest_free_function)(void *); typedef int (MPI_Grequest_cancel_function)(void *, int); # 506 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_TAG_UB, MPI_HOST, MPI_IO, MPI_WTIME_IS_GLOBAL, MPI_APPNUM, MPI_LASTUSEDCODE, MPI_UNIVERSE_SIZE, MPI_WIN_BASE, MPI_WIN_SIZE, MPI_WIN_DISP_UNIT, MPI_WIN_CREATE_FLAVOR, MPI_WIN_MODEL, IMPI_CLIENT_SIZE, IMPI_CLIENT_COLOR, IMPI_HOST_SIZE, IMPI_HOST_COLOR }; # 623 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_IDENT, MPI_CONGRUENT, MPI_SIMILAR, MPI_UNEQUAL }; enum { MPI_THREAD_SINGLE, MPI_THREAD_FUNNELED, MPI_THREAD_SERIALIZED, MPI_THREAD_MULTIPLE }; enum { MPI_COMBINER_NAMED, MPI_COMBINER_DUP, MPI_COMBINER_CONTIGUOUS, MPI_COMBINER_VECTOR, MPI_COMBINER_HVECTOR_INTEGER, MPI_COMBINER_HVECTOR, MPI_COMBINER_INDEXED, MPI_COMBINER_HINDEXED_INTEGER, MPI_COMBINER_HINDEXED, MPI_COMBINER_INDEXED_BLOCK, MPI_COMBINER_STRUCT_INTEGER, MPI_COMBINER_STRUCT, MPI_COMBINER_SUBARRAY, MPI_COMBINER_DARRAY, MPI_COMBINER_F90_REAL, MPI_COMBINER_F90_COMPLEX, MPI_COMBINER_F90_INTEGER, MPI_COMBINER_RESIZED, MPI_COMBINER_HINDEXED_BLOCK }; enum { MPI_COMM_TYPE_SHARED }; enum { MPI_T_VERBOSITY_USER_BASIC, MPI_T_VERBOSITY_USER_DETAIL, MPI_T_VERBOSITY_USER_ALL, MPI_T_VERBOSITY_TUNER_BASIC, MPI_T_VERBOSITY_TUNER_DETAIL, MPI_T_VERBOSITY_TUNER_ALL, MPI_T_VERBOSITY_MPIDEV_BASIC, MPI_T_VERBOSITY_MPIDEV_DETAIL, MPI_T_VERBOSITY_MPIDEV_ALL }; enum { MPI_T_SCOPE_CONSTANT, MPI_T_SCOPE_READONLY, MPI_T_SCOPE_LOCAL, MPI_T_SCOPE_GROUP, MPI_T_SCOPE_GROUP_EQ, MPI_T_SCOPE_ALL, MPI_T_SCOPE_ALL_EQ }; enum { MPI_T_BIND_NO_OBJECT, MPI_T_BIND_MPI_COMM, MPI_T_BIND_MPI_DATATYPE, MPI_T_BIND_MPI_ERRHANDLER, MPI_T_BIND_MPI_FILE, MPI_T_BIND_MPI_GROUP, MPI_T_BIND_MPI_OP, MPI_T_BIND_MPI_REQUEST, MPI_T_BIND_MPI_WIN, MPI_T_BIND_MPI_MESSAGE, MPI_T_BIND_MPI_INFO }; enum { MPI_T_PVAR_CLASS_STATE, MPI_T_PVAR_CLASS_LEVEL, MPI_T_PVAR_CLASS_SIZE, MPI_T_PVAR_CLASS_PERCENTAGE, MPI_T_PVAR_CLASS_HIGHWATERMARK, MPI_T_PVAR_CLASS_LOWWATERMARK, MPI_T_PVAR_CLASS_COUNTER, MPI_T_PVAR_CLASS_AGGREGATE, MPI_T_PVAR_CLASS_TIMER, MPI_T_PVAR_CLASS_GENERIC }; # 812 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_DELETE_FN( MPI_Datatype datatype, int type_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_COPY_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_DUP_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ) __attribute__((__deprecated__("MPI_NULL_DELETE_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_NULL_COPY_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_DUP_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_DELETE_FN( MPI_Win window, int win_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_COPY_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_DUP_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); # 882 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_world; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_self; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_null; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_empty; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_null; __attribute__((visibility("default"))) extern struct ompi_predefined_request_t ompi_request_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_no_proc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_null; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_min; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_max; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_sum; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_prod; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_land; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_band; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_maxloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_minloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_replace; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_no_op; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_datatype_null; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_lb __attribute__((__deprecated__("MPI_LB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ub __attribute__((__deprecated__("MPI_UB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_signed_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_byte; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_wchar; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_packed; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_character; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_longdbl_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex32; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_aint; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_offset; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_count; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_float_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_long_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errhandler_null; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_are_fatal; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_return; __attribute__((visibility("default"))) extern struct ompi_predefined_win_t ompi_mpi_win_null; __attribute__((visibility("default"))) extern struct ompi_predefined_file_t ompi_mpi_file_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_env; __attribute__((visibility("default"))) extern int *MPI_F_STATUS_IGNORE; __attribute__((visibility("default"))) extern int *MPI_F_STATUSES_IGNORE; # 1180 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int MPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int MPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int MPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int MPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int MPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int MPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int MPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int MPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int MPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int MPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int MPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int MPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int MPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int MPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int MPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int MPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int MPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm MPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int MPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int MPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int MPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int MPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int MPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int MPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int MPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int MPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int MPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int MPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int MPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int MPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler MPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int MPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int MPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File MPI_File_f2c(int file); __attribute__((visibility("default"))) int MPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int MPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int MPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int MPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int MPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int MPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int MPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int MPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int MPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int MPI_Finalize(void); __attribute__((visibility("default"))) int MPI_Finalized(int *flag); __attribute__((visibility("default"))) int MPI_Free_mem(void *base); __attribute__((visibility("default"))) int MPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int MPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int MPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int MPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int MPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int MPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int MPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int MPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int MPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int MPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int MPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int MPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int MPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group MPI_Group_f2c(int group); __attribute__((visibility("default"))) int MPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int MPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int MPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int MPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int MPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int MPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int MPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info MPI_Info_f2c(int info); __attribute__((visibility("default"))) int MPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int MPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int MPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int MPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int MPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int MPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int MPI_Initialized(int *flag); __attribute__((visibility("default"))) int MPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int MPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int MPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int MPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message MPI_Message_f2c(int message); __attribute__((visibility("default"))) int MPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int MPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int MPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int MPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op MPI_Op_f2c(int op); __attribute__((visibility("default"))) int MPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int MPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int MPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int MPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int MPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Query_thread(int *provided); __attribute__((visibility("default"))) int MPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op op); __attribute__((visibility("default"))) int MPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int MPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request MPI_Request_f2c(int request); __attribute__((visibility("default"))) int MPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int MPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int MPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int MPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int MPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int MPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int MPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int MPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int MPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int MPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype MPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int MPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int MPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int MPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int MPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int MPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int MPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int MPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int MPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int MPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int MPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status *array_of_statuses); __attribute__((visibility("default"))) int MPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int MPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int MPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int MPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win MPI_Win_f2c(int win); __attribute__((visibility("default"))) int MPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int MPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int MPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int MPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int MPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int MPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double MPI_Wtick(void); __attribute__((visibility("default"))) double MPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int PMPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int PMPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int PMPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int PMPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int PMPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int PMPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int PMPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int PMPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int PMPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int PMPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int PMPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int PMPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int PMPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int PMPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int PMPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int PMPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm PMPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int PMPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int PMPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int PMPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int PMPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int PMPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int PMPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int PMPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int PMPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler PMPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int PMPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int PMPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File PMPI_File_f2c(int file); __attribute__((visibility("default"))) int PMPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int PMPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int PMPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int PMPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int PMPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int PMPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int PMPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int PMPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int PMPI_Finalize(void); __attribute__((visibility("default"))) int PMPI_Finalized(int *flag); __attribute__((visibility("default"))) int PMPI_Free_mem(void *base); __attribute__((visibility("default"))) int PMPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int PMPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int PMPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int PMPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int PMPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int PMPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int PMPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int PMPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int PMPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int PMPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int PMPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int PMPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int PMPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group PMPI_Group_f2c(int group); __attribute__((visibility("default"))) int PMPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int PMPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int PMPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int PMPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int PMPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int PMPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info PMPI_Info_f2c(int info); __attribute__((visibility("default"))) int PMPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int PMPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int PMPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int PMPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int PMPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int PMPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int PMPI_Initialized(int *flag); __attribute__((visibility("default"))) int PMPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int PMPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int PMPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int PMPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message PMPI_Message_f2c(int message); __attribute__((visibility("default"))) int PMPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int PMPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int PMPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op PMPI_Op_f2c(int op); __attribute__((visibility("default"))) int PMPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int PMPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int PMPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int PMPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Query_thread(int *provided); __attribute__((visibility("default"))) int PMPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op); __attribute__((visibility("default"))) int PMPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int PMPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request PMPI_Request_f2c(int request); __attribute__((visibility("default"))) int PMPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int PMPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int PMPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int PMPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int PMPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int PMPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int PMPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int PMPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int PMPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int PMPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype PMPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int PMPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int PMPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int PMPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int PMPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int PMPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int PMPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int PMPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int PMPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int PMPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int PMPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int PMPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int PMPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win PMPI_Win_f2c(int win); __attribute__((visibility("default"))) int PMPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int PMPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int PMPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int PMPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int PMPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double PMPI_Wtick(void); __attribute__((visibility("default"))) double PMPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int PMPI_T_finalize (void); __attribute__((visibility("default"))) int PMPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int PMPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int PMPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int PMPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int PMPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int PMPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int PMPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int PMPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int PMPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int PMPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int PMPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int MPI_T_finalize (void); __attribute__((visibility("default"))) int MPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int MPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int MPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int MPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int MPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int MPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int MPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int MPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int MPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int MPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int MPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['mpi.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C ================================================================================ TEST configureConversion from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:215) TESTING: configureConversion from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:215) Check for the functions which convert communicators between C and Fortran - Define HAVE_MPI_COMM_F2C and HAVE_MPI_COMM_C2F if they are present - Some older MPI 1 implementations are missing these All intermediate test results are stored in /tmp/petsc-n3SpCv/config.packages.MPI Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Comm_f2c((MPI_Fint)0)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPI_COMM_F2C" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Comm_c2f(MPI_COMM_WORLD)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPI_COMM_C2F" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:10: warning: unused variable ‘a’ [-Wunused-variable] MPI_Fint a; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Fint a; ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPI_FINT" to "1" ================================================================================ TEST configureMPI2 from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:178) TESTING: configureMPI2 from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:178) Check for functions added to the interface in MPI-2 Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int flag;if (MPI_Finalized(&flag)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPI_FINALIZED" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Allreduce(MPI_IN_PLACE,0, 1, MPI_INT, MPI_SUM, MPI_COMM_SELF)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPI_IN_PLACE" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:1: warning: initialization makes pointer from integer without a cast int count=2; int blocklens[2]={0,1}; MPI_Aint indices[2]={0,1}; MPI_Datatype old_types[2]={0,1}; MPI_Datatype *newtype = 0; ^ /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:1: warning: (near initialization for ‘old_types[1]’) Source: #include "confdefs.h" #include "conffix.h" #include int main() { int count=2; int blocklens[2]={0,1}; MPI_Aint indices[2]={0,1}; MPI_Datatype old_types[2]={0,1}; MPI_Datatype *newtype = 0; if (MPI_Type_create_struct(count, blocklens, indices, old_types, newtype)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:1: warning: ‘MPI_Comm_errhandler_fn’ is deprecated: MPI_Comm_errhandler_fn was deprecated in MPI-2.2; use MPI_Comm_errhandler_function instead [-Wdeprecated-declarations] MPI_Comm_errhandler_fn * p_err_fun = 0; MPI_Errhandler * p_errhandler = 0; if (MPI_Comm_create_errhandler(p_err_fun,p_errhandler)); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Comm_errhandler_fn * p_err_fun = 0; MPI_Errhandler * p_errhandler = 0; if (MPI_Comm_create_errhandler(p_err_fun,p_errhandler)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Comm_set_errhandler(MPI_COMM_WORLD,MPI_ERRORS_RETURN)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Reduce_local(0, 0, 0, MPI_INT, MPI_SUM));; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPI_REDUCE_LOCAL" to "1" ================================================================================ TEST configureTypes from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:235) TESTING: configureTypes from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:235) Checking for MPI types Checking for size of type: MPI_Comm Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif #define MPICH_IGNORE_CXX_SEEK #define MPICH_SKIP_MPICXX 1 #define OMPI_SKIP_MPICXX 1 #include int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(MPI_Comm)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_MPI_COMM" to "8" Checking for size of type: MPI_Fint Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif #define MPICH_IGNORE_CXX_SEEK #define MPICH_SKIP_MPICXX 1 #define OMPI_SKIP_MPICXX 1 #include int main() { FILE *f = fopen("conftestval", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(MPI_Fint)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.types/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.types/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.types/conftest Executing: /tmp/petsc-n3SpCv/config.types/conftest Popping language C Defined "SIZEOF_MPI_FINT" to "4" ================================================================================ TEST configureMPITypes from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:247) TESTING: configureMPITypes from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:247) Checking for MPI Datatype handles Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:12:1: warning: ‘MPI_Type_extent’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1753): MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0 [-Wdeprecated-declarations] ierr = MPI_Type_extent(MPI_LONG_DOUBLE, &size); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_STDLIB_H #include #endif #include int main() { MPI_Aint size; int ierr; MPI_Init(0,0); ierr = MPI_Type_extent(MPI_LONG_DOUBLE, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:12:1: warning: ‘MPI_Type_extent’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1753): MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0 [-Wdeprecated-declarations] ierr = MPI_Type_extent(MPI_LONG_DOUBLE, &size); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_STDLIB_H #include #endif #include int main() { MPI_Aint size; int ierr; MPI_Init(0,0); ierr = MPI_Type_extent(MPI_LONG_DOUBLE, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.packages.MPI/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.packages.MPI/conftest Executing: /tmp/petsc-n3SpCv/config.packages.MPI/conftest stdout: -------------------------------------------------------------------------- WARNING: There are more than one active ports on host 'fram-login-5-2', but the default subnet GID prefix was detected on more than one of these ports. If these ports are connected to different physical IB networks, this configuration will fail in Open MPI. This version of Open MPI requires that every physically separate IB subnet that is used between connected MPI processes must have different subnet ID values. Please see this FAQ entry for more details: http://www.open-mpi.org/faq/?category=openfabrics#ofa-default-subnet-gid NOTE: You can turn off this warning by setting the MCA parameter btl_openib_warn_default_gid_prefix to 0. -------------------------------------------------------------------------- Defined "HAVE_MPI_LONG_DOUBLE" to "1" Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:12:1: warning: ‘MPI_Type_extent’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1753): MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0 [-Wdeprecated-declarations] ierr = MPI_Type_extent(MPI_INT64_T, &size); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_STDLIB_H #include #endif #include int main() { MPI_Aint size; int ierr; MPI_Init(0,0); ierr = MPI_Type_extent(MPI_INT64_T, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:12:1: warning: ‘MPI_Type_extent’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1753): MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0 [-Wdeprecated-declarations] ierr = MPI_Type_extent(MPI_INT64_T, &size); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_STDLIB_H #include #endif #include int main() { MPI_Aint size; int ierr; MPI_Init(0,0); ierr = MPI_Type_extent(MPI_INT64_T, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.packages.MPI/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.packages.MPI/conftest Executing: /tmp/petsc-n3SpCv/config.packages.MPI/conftest stdout: -------------------------------------------------------------------------- WARNING: There are more than one active ports on host 'fram-login-5-2', but the default subnet GID prefix was detected on more than one of these ports. If these ports are connected to different physical IB networks, this configuration will fail in Open MPI. This version of Open MPI requires that every physically separate IB subnet that is used between connected MPI processes must have different subnet ID values. Please see this FAQ entry for more details: http://www.open-mpi.org/faq/?category=openfabrics#ofa-default-subnet-gid NOTE: You can turn off this warning by setting the MCA parameter btl_openib_warn_default_gid_prefix to 0. -------------------------------------------------------------------------- Defined "HAVE_MPI_INT64_T" to "1" Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:12:1: warning: ‘MPI_Type_extent’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1753): MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0 [-Wdeprecated-declarations] ierr = MPI_Type_extent(MPI_C_DOUBLE_COMPLEX, &size); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_STDLIB_H #include #endif #include int main() { MPI_Aint size; int ierr; MPI_Init(0,0); ierr = MPI_Type_extent(MPI_C_DOUBLE_COMPLEX, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:12:1: warning: ‘MPI_Type_extent’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1753): MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0 [-Wdeprecated-declarations] ierr = MPI_Type_extent(MPI_C_DOUBLE_COMPLEX, &size); ^ Source: #include "confdefs.h" #include "conffix.h" #ifdef PETSC_HAVE_STDLIB_H #include #endif #include int main() { MPI_Aint size; int ierr; MPI_Init(0,0); ierr = MPI_Type_extent(MPI_C_DOUBLE_COMPLEX, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.packages.MPI/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.packages.MPI/conftest Executing: /tmp/petsc-n3SpCv/config.packages.MPI/conftest stdout: -------------------------------------------------------------------------- WARNING: There are more than one active ports on host 'fram-login-5-2', but the default subnet GID prefix was detected on more than one of these ports. If these ports are connected to different physical IB networks, this configuration will fail in Open MPI. This version of Open MPI requires that every physically separate IB subnet that is used between connected MPI processes must have different subnet ID values. Please see this FAQ entry for more details: http://www.open-mpi.org/faq/?category=openfabrics#ofa-default-subnet-gid NOTE: You can turn off this warning by setting the MCA parameter btl_openib_warn_default_gid_prefix to 0. -------------------------------------------------------------------------- Defined "HAVE_MPI_C_DOUBLE_COMPLEX" to "1" Popping language C ================================================================================ TEST configureMissingPrototypes from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:318) TESTING: configureMissingPrototypes from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:318) Checks for missing prototypes, which it adds to petscfix.h ================================================================================ TEST SGIMPICheck from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:337) TESTING: SGIMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:337) Returns true if SGI MPI is used Checking for functions [MPI_SGI_barrier] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_SGI_barrier(); static void _check_MPI_SGI_barrier() { MPI_SGI_barrier(); } int main() { _check_MPI_SGI_barrier();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'MPI_SGI_barrier' collect2: error: ld returned 1 exit status Popping language C SGI MPI test failure ================================================================================ TEST CxxMPICheck from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:347) TESTING: CxxMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:347) Make sure C++ can compile and link Pushing language Cxx Checking for header mpi.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { ; return 0; } Checking for C++ MPI_Finalize() Checking for functions [MPI_Finalize] in library [] [] Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/config.libraries/conftest.cc Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.cc: In function ‘void _check_MPI_Finalize()’: /tmp/petsc-n3SpCv/config.libraries/conftest.cc:5:41: warning: variable ‘ierr’ set but not used [-Wunused-but-set-variable] static void _check_MPI_Finalize() { int ierr; ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_MPI_Finalize() { int ierr; ierr = MPI_Finalize();; } int main() { _check_MPI_Finalize();; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language Cxx Popping language Cxx ================================================================================ TEST FortranMPICheck from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:365) TESTING: FortranMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:365) Make sure fortran include [mpif.h] and library symbols are found Pushing language FC Checking for header mpif.h Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.F90 Successful compile: Source: program main #include "mpif.h" end Checking for fortran mpi_init() Checking for functions [] in library [] [] Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.F90 Successful compile: Source: program main #include "mpif.h" integer ierr call mpi_init(ierr) end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language FC Checking for mpi.mod Checking for functions [] in library [] [] Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.F90 Successful compile: Source: program main use mpi integer ierr,rank call mpi_init(ierr) call mpi_comm_rank(MPI_COMM_WORLD,rank,ierr) end Pushing language FC Popping language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language FC Defined "HAVE_MPI_F90MODULE" to "1" Popping language FC ================================================================================ TEST configureIO from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:390) TESTING: configureIO from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:390) Check for the functions in MPI/IO - Define HAVE_MPIIO if they are present - Some older MPI 1 implementations are missing these Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Aint lb, extent; if (MPI_Type_get_extent(MPI_INT, &lb, &extent)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘fh’ is used uninitialized in this function [-Wuninitialized] if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); ^ /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘buf’ is used uninitialized in this function [-Wuninitialized] Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_File fh; void *buf; MPI_Status status; if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘fh’ is used uninitialized in this function [-Wuninitialized] if (MPI_File_read_all(fh, buf, 1, MPI_INT, &status)); ^ /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘buf’ is used uninitialized in this function [-Wuninitialized] Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_File fh; void *buf; MPI_Status status; if (MPI_File_read_all(fh, buf, 1, MPI_INT, &status)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘fh’ is used uninitialized in this function [-Wuninitialized] if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); ^ /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘disp’ is used uninitialized in this function [-Wuninitialized] /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:9:5: warning: ‘info’ is used uninitialized in this function [-Wuninitialized] Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_File fh; MPI_Offset disp; MPI_Info info; if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:8:5: warning: ‘info’ is used uninitialized in this function [-Wuninitialized] if (MPI_File_open(MPI_COMM_SELF, "", 0, info, &fh)); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_File fh; MPI_Info info; if (MPI_File_open(MPI_COMM_SELF, "", 0, info, &fh)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:7:10: warning: unused variable ‘info’ [-Wunused-variable] MPI_Info info; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_File fh; MPI_Info info; if (MPI_File_close(&fh)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_MPIIO" to "1" ================================================================================ TEST findMPIInc from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:462) TESTING: findMPIInc from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:462) Find MPI include paths from "mpicc -show" and use with CUDAC_FLAGS ================================================================================ TEST checkMPICHorOpenMPI from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:427) TESTING: checkMPICHorOpenMPI from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:427) Determine if MPICH_NUMVERSION or OMPI_MAJOR_VERSION exist in mpi.h Used for consistency checking of MPI installation at compile time Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:4:17: error: ‘I_MPI_NUMVERSION’ undeclared here (not in a function) int mpich_ver = I_MPI_NUMVERSION; ^ Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = I_MPI_NUMVERSION; int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:4:17: error: ‘MVAPICH2_NUMVERSION’ undeclared here (not in a function) int mpich_ver = MVAPICH2_NUMVERSION; ^ Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = MVAPICH2_NUMVERSION; int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:4:17: error: ‘MPICH_NUMVERSION’ undeclared here (not in a function) int mpich_ver = MPICH_NUMVERSION; ^ Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = MPICH_NUMVERSION; int main() { ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int ompi_major = OMPI_MAJOR_VERSION; int ompi_minor = OMPI_MINOR_VERSION; int ompi_release = OMPI_RELEASE_VERSION; int main() { ; return 0; } Source: #include "confdefs.h" #include "conffix.h" #include int ompi_major = OMPI_MAJOR_VERSION; int ompi_minor = OMPI_MINOR_VERSION; int ompi_release = OMPI_RELEASE_VERSION; Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.packages.MPI /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.packages.MPI/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.packages.MPI/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.packages.MPI/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.packages.MPI/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.packages.MPI/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.packages.MPI/conftest.c" 2 # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 1 # 225 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 226 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 258 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi_portable_platform.h" 1 # 259 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 323 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef ptrdiff_t MPI_Aint; typedef long long MPI_Offset; typedef long long MPI_Count; typedef struct ompi_communicator_t *MPI_Comm; typedef struct ompi_datatype_t *MPI_Datatype; typedef struct ompi_errhandler_t *MPI_Errhandler; typedef struct ompi_file_t *MPI_File; typedef struct ompi_group_t *MPI_Group; typedef struct ompi_info_t *MPI_Info; typedef struct ompi_op_t *MPI_Op; typedef struct ompi_request_t *MPI_Request; typedef struct ompi_message_t *MPI_Message; typedef struct ompi_status_public_t MPI_Status; typedef struct ompi_win_t *MPI_Win; typedef struct mca_base_var_enum_t *MPI_T_enum; typedef struct ompi_mpit_cvar_handle_t *MPI_T_cvar_handle; typedef struct mca_base_pvar_handle_t *MPI_T_pvar_handle; typedef struct mca_base_pvar_session_t *MPI_T_pvar_session; struct ompi_status_public_t { int MPI_SOURCE; int MPI_TAG; int MPI_ERROR; int _cancelled; size_t _ucount; }; typedef struct ompi_status_public_t ompi_status_public_t; # 370 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef int (MPI_Copy_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Delete_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Datarep_extent_function)(MPI_Datatype, MPI_Aint *, void *); typedef int (MPI_Datarep_conversion_function)(void *, MPI_Datatype, int, void *, MPI_Offset, void *); typedef void (MPI_Comm_errhandler_function)(MPI_Comm *, int *, ...); typedef MPI_Comm_errhandler_function MPI_Comm_errhandler_fn __attribute__((__deprecated__("MPI_Comm_errhandler_fn was deprecated in MPI-2.2; use MPI_Comm_errhandler_function instead"))); typedef void (ompi_file_errhandler_fn)(MPI_File *, int *, ...); typedef ompi_file_errhandler_fn MPI_File_errhandler_fn __attribute__((__deprecated__("MPI_File_errhandler_fn was deprecated in MPI-2.2; use MPI_File_errhandler_function instead"))); typedef ompi_file_errhandler_fn MPI_File_errhandler_function; typedef void (MPI_Win_errhandler_function)(MPI_Win *, int *, ...); typedef MPI_Win_errhandler_function MPI_Win_errhandler_fn __attribute__((__deprecated__("MPI_Win_errhandler_fn was deprecated in MPI-2.2; use MPI_Win_errhandler_function instead"))); typedef void (MPI_Handler_function)(MPI_Comm *, int *, ...); typedef void (MPI_User_function)(void *, void *, int *, MPI_Datatype *); typedef int (MPI_Comm_copy_attr_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Comm_delete_attr_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Type_copy_attr_function)(MPI_Datatype, int, void *, void *, void *, int *); typedef int (MPI_Type_delete_attr_function)(MPI_Datatype, int, void *, void *); typedef int (MPI_Win_copy_attr_function)(MPI_Win, int, void *, void *, void *, int *); typedef int (MPI_Win_delete_attr_function)(MPI_Win, int, void *, void *); typedef int (MPI_Grequest_query_function)(void *, MPI_Status *); typedef int (MPI_Grequest_free_function)(void *); typedef int (MPI_Grequest_cancel_function)(void *, int); # 506 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_TAG_UB, MPI_HOST, MPI_IO, MPI_WTIME_IS_GLOBAL, MPI_APPNUM, MPI_LASTUSEDCODE, MPI_UNIVERSE_SIZE, MPI_WIN_BASE, MPI_WIN_SIZE, MPI_WIN_DISP_UNIT, MPI_WIN_CREATE_FLAVOR, MPI_WIN_MODEL, IMPI_CLIENT_SIZE, IMPI_CLIENT_COLOR, IMPI_HOST_SIZE, IMPI_HOST_COLOR }; # 623 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_IDENT, MPI_CONGRUENT, MPI_SIMILAR, MPI_UNEQUAL }; enum { MPI_THREAD_SINGLE, MPI_THREAD_FUNNELED, MPI_THREAD_SERIALIZED, MPI_THREAD_MULTIPLE }; enum { MPI_COMBINER_NAMED, MPI_COMBINER_DUP, MPI_COMBINER_CONTIGUOUS, MPI_COMBINER_VECTOR, MPI_COMBINER_HVECTOR_INTEGER, MPI_COMBINER_HVECTOR, MPI_COMBINER_INDEXED, MPI_COMBINER_HINDEXED_INTEGER, MPI_COMBINER_HINDEXED, MPI_COMBINER_INDEXED_BLOCK, MPI_COMBINER_STRUCT_INTEGER, MPI_COMBINER_STRUCT, MPI_COMBINER_SUBARRAY, MPI_COMBINER_DARRAY, MPI_COMBINER_F90_REAL, MPI_COMBINER_F90_COMPLEX, MPI_COMBINER_F90_INTEGER, MPI_COMBINER_RESIZED, MPI_COMBINER_HINDEXED_BLOCK }; enum { MPI_COMM_TYPE_SHARED }; enum { MPI_T_VERBOSITY_USER_BASIC, MPI_T_VERBOSITY_USER_DETAIL, MPI_T_VERBOSITY_USER_ALL, MPI_T_VERBOSITY_TUNER_BASIC, MPI_T_VERBOSITY_TUNER_DETAIL, MPI_T_VERBOSITY_TUNER_ALL, MPI_T_VERBOSITY_MPIDEV_BASIC, MPI_T_VERBOSITY_MPIDEV_DETAIL, MPI_T_VERBOSITY_MPIDEV_ALL }; enum { MPI_T_SCOPE_CONSTANT, MPI_T_SCOPE_READONLY, MPI_T_SCOPE_LOCAL, MPI_T_SCOPE_GROUP, MPI_T_SCOPE_GROUP_EQ, MPI_T_SCOPE_ALL, MPI_T_SCOPE_ALL_EQ }; enum { MPI_T_BIND_NO_OBJECT, MPI_T_BIND_MPI_COMM, MPI_T_BIND_MPI_DATATYPE, MPI_T_BIND_MPI_ERRHANDLER, MPI_T_BIND_MPI_FILE, MPI_T_BIND_MPI_GROUP, MPI_T_BIND_MPI_OP, MPI_T_BIND_MPI_REQUEST, MPI_T_BIND_MPI_WIN, MPI_T_BIND_MPI_MESSAGE, MPI_T_BIND_MPI_INFO }; enum { MPI_T_PVAR_CLASS_STATE, MPI_T_PVAR_CLASS_LEVEL, MPI_T_PVAR_CLASS_SIZE, MPI_T_PVAR_CLASS_PERCENTAGE, MPI_T_PVAR_CLASS_HIGHWATERMARK, MPI_T_PVAR_CLASS_LOWWATERMARK, MPI_T_PVAR_CLASS_COUNTER, MPI_T_PVAR_CLASS_AGGREGATE, MPI_T_PVAR_CLASS_TIMER, MPI_T_PVAR_CLASS_GENERIC }; # 812 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_DELETE_FN( MPI_Datatype datatype, int type_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_COPY_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_DUP_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ) __attribute__((__deprecated__("MPI_NULL_DELETE_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_NULL_COPY_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_DUP_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_DELETE_FN( MPI_Win window, int win_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_COPY_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_DUP_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); # 882 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_world; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_self; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_null; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_empty; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_null; __attribute__((visibility("default"))) extern struct ompi_predefined_request_t ompi_request_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_no_proc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_null; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_min; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_max; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_sum; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_prod; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_land; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_band; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_maxloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_minloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_replace; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_no_op; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_datatype_null; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_lb __attribute__((__deprecated__("MPI_LB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ub __attribute__((__deprecated__("MPI_UB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_signed_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_byte; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_wchar; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_packed; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_character; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_longdbl_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex32; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_aint; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_offset; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_count; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_float_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_long_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errhandler_null; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_are_fatal; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_return; __attribute__((visibility("default"))) extern struct ompi_predefined_win_t ompi_mpi_win_null; __attribute__((visibility("default"))) extern struct ompi_predefined_file_t ompi_mpi_file_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_env; __attribute__((visibility("default"))) extern int *MPI_F_STATUS_IGNORE; __attribute__((visibility("default"))) extern int *MPI_F_STATUSES_IGNORE; # 1180 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int MPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int MPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int MPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int MPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int MPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int MPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int MPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int MPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int MPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int MPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int MPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int MPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int MPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int MPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int MPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int MPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int MPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm MPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int MPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int MPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int MPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int MPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int MPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int MPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int MPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int MPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int MPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int MPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int MPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int MPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler MPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int MPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int MPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File MPI_File_f2c(int file); __attribute__((visibility("default"))) int MPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int MPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int MPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int MPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int MPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int MPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int MPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int MPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int MPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int MPI_Finalize(void); __attribute__((visibility("default"))) int MPI_Finalized(int *flag); __attribute__((visibility("default"))) int MPI_Free_mem(void *base); __attribute__((visibility("default"))) int MPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int MPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int MPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int MPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int MPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int MPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int MPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int MPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int MPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int MPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int MPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int MPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int MPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group MPI_Group_f2c(int group); __attribute__((visibility("default"))) int MPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int MPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int MPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int MPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int MPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int MPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int MPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info MPI_Info_f2c(int info); __attribute__((visibility("default"))) int MPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int MPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int MPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int MPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int MPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int MPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int MPI_Initialized(int *flag); __attribute__((visibility("default"))) int MPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int MPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int MPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int MPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message MPI_Message_f2c(int message); __attribute__((visibility("default"))) int MPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int MPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int MPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int MPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op MPI_Op_f2c(int op); __attribute__((visibility("default"))) int MPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int MPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int MPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int MPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int MPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Query_thread(int *provided); __attribute__((visibility("default"))) int MPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op op); __attribute__((visibility("default"))) int MPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int MPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request MPI_Request_f2c(int request); __attribute__((visibility("default"))) int MPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int MPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int MPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int MPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int MPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int MPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int MPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int MPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int MPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int MPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype MPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int MPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int MPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int MPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int MPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int MPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int MPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int MPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int MPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int MPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int MPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status *array_of_statuses); __attribute__((visibility("default"))) int MPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int MPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int MPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int MPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win MPI_Win_f2c(int win); __attribute__((visibility("default"))) int MPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int MPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int MPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int MPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int MPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int MPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double MPI_Wtick(void); __attribute__((visibility("default"))) double MPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int PMPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int PMPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int PMPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int PMPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int PMPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int PMPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int PMPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int PMPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int PMPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int PMPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int PMPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int PMPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int PMPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int PMPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int PMPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int PMPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm PMPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int PMPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int PMPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int PMPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int PMPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int PMPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int PMPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int PMPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int PMPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler PMPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int PMPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int PMPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File PMPI_File_f2c(int file); __attribute__((visibility("default"))) int PMPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int PMPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int PMPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int PMPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int PMPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int PMPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int PMPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int PMPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int PMPI_Finalize(void); __attribute__((visibility("default"))) int PMPI_Finalized(int *flag); __attribute__((visibility("default"))) int PMPI_Free_mem(void *base); __attribute__((visibility("default"))) int PMPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int PMPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int PMPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int PMPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int PMPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int PMPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int PMPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int PMPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int PMPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int PMPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int PMPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int PMPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int PMPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group PMPI_Group_f2c(int group); __attribute__((visibility("default"))) int PMPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int PMPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int PMPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int PMPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int PMPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int PMPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info PMPI_Info_f2c(int info); __attribute__((visibility("default"))) int PMPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int PMPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int PMPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int PMPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int PMPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int PMPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int PMPI_Initialized(int *flag); __attribute__((visibility("default"))) int PMPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int PMPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int PMPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int PMPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message PMPI_Message_f2c(int message); __attribute__((visibility("default"))) int PMPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int PMPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int PMPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op PMPI_Op_f2c(int op); __attribute__((visibility("default"))) int PMPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int PMPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int PMPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int PMPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Query_thread(int *provided); __attribute__((visibility("default"))) int PMPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op); __attribute__((visibility("default"))) int PMPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int PMPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request PMPI_Request_f2c(int request); __attribute__((visibility("default"))) int PMPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int PMPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int PMPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int PMPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int PMPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int PMPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int PMPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int PMPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int PMPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int PMPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype PMPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int PMPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int PMPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int PMPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int PMPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int PMPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int PMPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int PMPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int PMPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int PMPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int PMPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int PMPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int PMPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win PMPI_Win_f2c(int win); __attribute__((visibility("default"))) int PMPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int PMPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int PMPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int PMPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int PMPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double PMPI_Wtick(void); __attribute__((visibility("default"))) double PMPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int PMPI_T_finalize (void); __attribute__((visibility("default"))) int PMPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int PMPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int PMPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int PMPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int PMPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int PMPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int PMPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int PMPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int PMPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int PMPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int PMPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int MPI_T_finalize (void); __attribute__((visibility("default"))) int MPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int MPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int MPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int MPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int MPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int MPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int MPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int MPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int MPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int MPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int MPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); # 4 "/tmp/petsc-n3SpCv/config.packages.MPI/conftest.c" 2 int ompi_major = 1; int ompi_minor = 10; int ompi_release = 2; Defined "HAVE_OMPI_MAJOR_VERSION" to "1" Defined "HAVE_OMPI_MINOR_VERSION" to "10" Defined "HAVE_OMPI_RELEASE_VERSION" to "2" Checking for functions [MPI_Alltoallw] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Alltoallw(); static void _check_MPI_Alltoallw() { MPI_Alltoallw(); } int main() { _check_MPI_Alltoallw();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language C Checking for functions [MPI_Type_create_indexed_block] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Type_create_indexed_block(); static void _check_MPI_Type_create_indexed_block() { MPI_Type_create_indexed_block(); } int main() { _check_MPI_Type_create_indexed_block();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language C Defined "HAVE_MPI_ALLTOALLW" to "1" Checking for functions [MPI_Win_create] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Win_create(); static void _check_MPI_Win_create() { MPI_Win_create(); } int main() { _check_MPI_Win_create();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language C Defined "HAVE_MPI_WIN_CREATE" to "1" Defined "HAVE_MPI_REPLACE" to "1" Checking for functions [MPI_Comm_spawn MPI_Type_get_envelope MPI_Type_get_extent MPI_Type_dup MPI_Init_thread MPI_Iallreduce MPI_Ibarrier MPI_Finalized MPI_Exscan MPI_Reduce_scatter MPI_Reduce_scatter_block] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Comm_spawn(); static void _check_MPI_Comm_spawn() { MPI_Comm_spawn(); } char MPI_Type_get_envelope(); static void _check_MPI_Type_get_envelope() { MPI_Type_get_envelope(); } char MPI_Type_get_extent(); static void _check_MPI_Type_get_extent() { MPI_Type_get_extent(); } char MPI_Type_dup(); static void _check_MPI_Type_dup() { MPI_Type_dup(); } char MPI_Init_thread(); static void _check_MPI_Init_thread() { MPI_Init_thread(); } char MPI_Iallreduce(); static void _check_MPI_Iallreduce() { MPI_Iallreduce(); } char MPI_Ibarrier(); static void _check_MPI_Ibarrier() { MPI_Ibarrier(); } char MPI_Finalized(); static void _check_MPI_Finalized() { MPI_Finalized(); } char MPI_Exscan(); static void _check_MPI_Exscan() { MPI_Exscan(); } char MPI_Reduce_scatter(); static void _check_MPI_Reduce_scatter() { MPI_Reduce_scatter(); } char MPI_Reduce_scatter_block(); static void _check_MPI_Reduce_scatter_block() { MPI_Reduce_scatter_block(); } int main() { _check_MPI_Comm_spawn(); _check_MPI_Type_get_envelope(); _check_MPI_Type_get_extent(); _check_MPI_Type_dup(); _check_MPI_Init_thread(); _check_MPI_Iallreduce(); _check_MPI_Ibarrier(); _check_MPI_Finalized(); _check_MPI_Exscan(); _check_MPI_Reduce_scatter(); _check_MPI_Reduce_scatter_block();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language C Defined "HAVE_MPI_COMM_SPAWN" to "1" Defined "HAVE_MPI_TYPE_GET_ENVELOPE" to "1" Defined "HAVE_MPI_TYPE_GET_EXTENT" to "1" Defined "HAVE_MPI_TYPE_DUP" to "1" Defined "HAVE_MPI_INIT_THREAD" to "1" Defined "HAVE_MPI_IALLREDUCE" to "1" Defined "HAVE_MPI_IBARRIER" to "1" Defined "HAVE_MPI_FINALIZED" to "1" Defined "HAVE_MPI_EXSCAN" to "1" Defined "HAVE_MPI_REDUCE_SCATTER" to "1" Defined "HAVE_MPI_REDUCE_SCATTER_BLOCK" to "1" Checking for functions [MPIX_Iallreduce] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPIX_Iallreduce(); static void _check_MPIX_Iallreduce() { MPIX_Iallreduce(); } int main() { _check_MPIX_Iallreduce();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'MPIX_Iallreduce' collect2: error: ld returned 1 exit status Popping language C Checking for functions [MPIX_Ibarrier] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPIX_Ibarrier(); static void _check_MPIX_Ibarrier() { MPIX_Ibarrier(); } int main() { _check_MPIX_Ibarrier();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'MPIX_Ibarrier' collect2: error: ld returned 1 exit status Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:5: warning: unused variable ‘combiner’ [-Wunused-variable] int combiner = MPI_COMBINER_DUP;; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int combiner = MPI_COMBINER_DUP;; return 0; } Defined "HAVE_MPI_COMBINER_DUP" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:5: warning: unused variable ‘combiner’ [-Wunused-variable] int combiner = MPI_COMBINER_CONTIGUOUS;; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int combiner = MPI_COMBINER_CONTIGUOUS;; return 0; } Defined "HAVE_MPI_COMBINER_CONTIGUOUS" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c:6:5: warning: unused variable ‘combiner’ [-Wunused-variable] int combiner = MPI_COMBINER_NAMED;; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int combiner = MPI_COMBINER_NAMED;; return 0; } Defined "HAVE_MPI_COMBINER_NAMED" to "1" Checking for functions [MPIDI_CH3I_sock_set] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPIDI_CH3I_sock_set(); static void _check_MPIDI_CH3I_sock_set() { MPIDI_CH3I_sock_set(); } int main() { _check_MPIDI_CH3I_sock_set();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'MPIDI_CH3I_sock_set' collect2: error: ld returned 1 exit status Popping language C Checking for functions [MPIDI_CH3I_sock_fixed_nbc_progress] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPIDI_CH3I_sock_fixed_nbc_progress(); static void _check_MPIDI_CH3I_sock_fixed_nbc_progress() { MPIDI_CH3I_sock_fixed_nbc_progress(); } int main() { _check_MPIDI_CH3I_sock_fixed_nbc_progress();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'MPIDI_CH3I_sock_fixed_nbc_progress' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:128) TESTING: checkSharedLibrary from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:128) Sets flag indicating if MPI libraries are shared or not and determines if MPI libraries CANNOT be used by shared libraries ================================================================================ TEST configureMPIEXEC from config.packages.MPI(/global/home/thl/petsc/config/BuildSystem/config/packages/MPI.py:141) TESTING: configureMPIEXEC from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:141) Checking for mpiexec Pushing language C Popping language C Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpiexec...found Defined make macro "MPIEXEC" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpiexec" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #ifdef __cplusplus extern "C" #endif int init(int argc, char *argv[]) { int isInitialized; MPI_Init(&argc, &argv); MPI_Initialized(&isInitialized); return (int) isInitialized; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/libconftest.so -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #ifdef __cplusplus extern "C" #endif int checkInit(void) { int isInitialized; MPI_Initialized(&isInitialized); if (isInitialized) MPI_Finalize(); return (int) isInitialized; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.MPI/libconftest.so -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.MPI/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #ifdef PETSC_HAVE_DLFCN_H #include #endif int main() { int argc = 1; char *argv[2] = {(char *) "conftest", NULL}; void *lib; int (*init)(int, char **); int (*checkInit)(void); lib = dlopen("/tmp/petsc-n3SpCv/config.libraries/lib1.so", RTLD_LAZY); if (!lib) { fprintf(stderr, "Could not open lib1.so: %s\n", dlerror()); exit(1); } init = (int (*)(int, char **)) dlsym(lib, "init"); if (!init) { fprintf(stderr, "Could not find initialization function\n"); exit(1); } if (!(*init)(argc, argv)) { fprintf(stderr, "Could not initialize library\n"); exit(1); } lib = dlopen("/tmp/petsc-n3SpCv/config.libraries/lib2.so", RTLD_LAZY); if (!lib) { fprintf(stderr, "Could not open lib2.so: %s\n", dlerror()); exit(1); } checkInit = (int (*)(void)) dlsym(lib, "checkInit"); if (!checkInit) { fprintf(stderr, "Could not find initialization check function\n"); exit(1); } if (!(*checkInit)()) { fprintf(stderr, "Did not link with shared library\n"); exit(2); } ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl -ldl Testing executable /tmp/petsc-n3SpCv/config.libraries/conftest to see if it can be run Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpiexec /tmp/petsc-n3SpCv/config.libraries/conftest Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpiexec /tmp/petsc-n3SpCv/config.libraries/conftest stdout: ------------------------------------------------------- Primary job terminated normally, but 1 process returned a non-zero exit code.. Per user-direction, the job has been aborted. ------------------------------------------------------- -------------------------------------------------------------------------- mpiexec detected that one or more processes exited with non-zero status, thus causing the job to be terminated. The first process to do so was: Process name: [[38291,1],0] Exit code: 1 -------------------------------------------------------------------------- ERROR while running executable: Could not execute "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpiexec /tmp/petsc-n3SpCv/config.libraries/conftest": ------------------------------------------------------- Primary job terminated normally, but 1 process returned a non-zero exit code.. Per user-direction, the job has been aborted. ------------------------------------------------------- -------------------------------------------------------------------------- mpiexec detected that one or more processes exited with non-zero status, thus causing the job to be terminated. The first process to do so was: Process name: [[38291,1],0] Exit code: 1 --------------------------------------------------------------------------Could not find initialization function Library was not shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.yaml(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.yaml(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST configureLibrary from config.packages.valgrind(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.valgrind(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional valgrind Not checking for library in Compiler specific search VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for headers Compiler specific search VALGRIND: ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['valgrind/valgrind.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.headers -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^compilation terminated.: Popping language C Not checking for library in Package specific search directory VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for headers Package specific search directory VALGRIND: ['/usr/local/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['valgrind/valgrind.h'] in ['/usr/local/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/usr/local/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.headers -I/usr/local/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^compilation terminated.: Popping language C Not checking for library in Package specific search directory VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for headers Package specific search directory VALGRIND: ['/usr/local/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['valgrind/valgrind.h'] in ['/usr/local/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/usr/local/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.headers -I/usr/local/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Possible ERROR while running preprocessor: exit code 256 stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2stderr: /tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-n3SpCv/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^compilation terminated.: Popping language C VALGRIND: SearchDir DirPath not found.. skipping: /opt/local Executing: uname -s stdout: Linux =============================================================================== It appears you do not have valgrind installed on your system. We HIGHLY recommend you install it from www.valgrind.org Or install valgrind-devel or equivalent using your package manager. Then rerun ./configure =============================================================================== Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.ssl(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.ssl(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.sprng(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.sprng(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default PETSc clone, checking for Sowing Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/pdflatex...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/pdflatex...not found Checking for program /usr/lib64/qt-3.3/bin/pdflatex...not found Checking for program /usr/local/bin/pdflatex...not found Checking for program /bin/pdflatex...not found Checking for program /usr/bin/pdflatex...not found Checking for program /usr/local/sbin/pdflatex...not found Checking for program /usr/sbin/pdflatex...not found Checking for program /sbin/pdflatex...not found Checking for program /opt/ganglia/bin/pdflatex...not found Checking for program /opt/ganglia/sbin/pdflatex...not found Checking for program /opt/ibutils/bin/pdflatex...not found Checking for program /usr/java/latest/bin/pdflatex...not found Checking for program /opt/maui/bin/pdflatex...not found Checking for program /opt/torque/bin/pdflatex...not found Checking for program /opt/torque/sbin/pdflatex...not found Checking for program /opt/rocks/bin/pdflatex...not found Checking for program /opt/rocks/sbin/pdflatex...not found Checking for program /opt/condor/bin/pdflatex...not found Checking for program /opt/condor/sbin/pdflatex...not found Checking for program /home/thl/pdflatex...not found Checking for program /home/thl/petsc/bin/win32fe/pdflatex...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/bfort...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/bfort...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/bfort...not found Checking for program /usr/lib64/qt-3.3/bin/bfort...not found Checking for program /usr/local/bin/bfort...not found Checking for program /bin/bfort...not found Checking for program /usr/bin/bfort...not found Checking for program /usr/local/sbin/bfort...not found Checking for program /usr/sbin/bfort...not found Checking for program /sbin/bfort...not found Checking for program /opt/ganglia/bin/bfort...not found Checking for program /opt/ganglia/sbin/bfort...not found Checking for program /opt/ibutils/bin/bfort...not found Checking for program /usr/java/latest/bin/bfort...not found Checking for program /opt/maui/bin/bfort...not found Checking for program /opt/torque/bin/bfort...not found Checking for program /opt/torque/sbin/bfort...not found Checking for program /opt/rocks/bin/bfort...not found Checking for program /opt/rocks/sbin/bfort...not found Checking for program /opt/condor/bin/bfort...not found Checking for program /opt/condor/sbin/bfort...not found Checking for program /home/thl/bfort...not found Checking for program /home/thl/petsc/bin/win32fe/bfort...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/doctext...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/doctext...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/doctext...not found Checking for program /usr/lib64/qt-3.3/bin/doctext...not found Checking for program /usr/local/bin/doctext...not found Checking for program /bin/doctext...not found Checking for program /usr/bin/doctext...not found Checking for program /usr/local/sbin/doctext...not found Checking for program /usr/sbin/doctext...not found Checking for program /sbin/doctext...not found Checking for program /opt/ganglia/bin/doctext...not found Checking for program /opt/ganglia/sbin/doctext...not found Checking for program /opt/ibutils/bin/doctext...not found Checking for program /usr/java/latest/bin/doctext...not found Checking for program /opt/maui/bin/doctext...not found Checking for program /opt/torque/bin/doctext...not found Checking for program /opt/torque/sbin/doctext...not found Checking for program /opt/rocks/bin/doctext...not found Checking for program /opt/rocks/sbin/doctext...not found Checking for program /opt/condor/bin/doctext...not found Checking for program /opt/condor/sbin/doctext...not found Checking for program /home/thl/doctext...not found Checking for program /home/thl/petsc/bin/win32fe/doctext...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/mapnames...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/mapnames...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/mapnames...not found Checking for program /usr/lib64/qt-3.3/bin/mapnames...not found Checking for program /usr/local/bin/mapnames...not found Checking for program /bin/mapnames...not found Checking for program /usr/bin/mapnames...not found Checking for program /usr/local/sbin/mapnames...not found Checking for program /usr/sbin/mapnames...not found Checking for program /sbin/mapnames...not found Checking for program /opt/ganglia/bin/mapnames...not found Checking for program /opt/ganglia/sbin/mapnames...not found Checking for program /opt/ibutils/bin/mapnames...not found Checking for program /usr/java/latest/bin/mapnames...not found Checking for program /opt/maui/bin/mapnames...not found Checking for program /opt/torque/bin/mapnames...not found Checking for program /opt/torque/sbin/mapnames...not found Checking for program /opt/rocks/bin/mapnames...not found Checking for program /opt/rocks/sbin/mapnames...not found Checking for program /opt/condor/bin/mapnames...not found Checking for program /opt/condor/sbin/mapnames...not found Checking for program /home/thl/mapnames...not found Checking for program /home/thl/petsc/bin/win32fe/mapnames...not found Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/bib2html...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/bib2html...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/bib2html...not found Checking for program /usr/lib64/qt-3.3/bin/bib2html...not found Checking for program /usr/local/bin/bib2html...not found Checking for program /bin/bib2html...not found Checking for program /usr/bin/bib2html...not found Checking for program /usr/local/sbin/bib2html...not found Checking for program /usr/sbin/bib2html...not found Checking for program /sbin/bib2html...not found Checking for program /opt/ganglia/bin/bib2html...not found Checking for program /opt/ganglia/sbin/bib2html...not found Checking for program /opt/ibutils/bin/bib2html...not found Checking for program /usr/java/latest/bin/bib2html...not found Checking for program /opt/maui/bin/bib2html...not found Checking for program /opt/torque/bin/bib2html...not found Checking for program /opt/torque/sbin/bib2html...not found Checking for program /opt/rocks/bin/bib2html...not found Checking for program /opt/rocks/sbin/bib2html...not found Checking for program /opt/condor/bin/bib2html...not found Checking for program /opt/condor/sbin/bib2html...not found Checking for program /home/thl/bib2html...not found Checking for program /home/thl/petsc/bin/win32fe/bib2html...not found Bfort not found. Installing sowing for FortranStubs Pushing language C ================================================================================ TEST checkDependencies from config.packages.sowing(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.sowing(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.sowing(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.sowing(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional sowing Looking for SOWING at git.sowing, hg.sowing or a directory starting with ['petsc-pkg-sowing'] Found a copy of SOWING in git.sowing Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'v1.1.25-p1^{commit}'] Executing: ['git', 'rev-parse', 'v1.1.25-p1'] stdout: bc33abe1e9818d95968d6897bfbfc35ed0c18b51 Executing: ['git', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing pkg.gitcommit Removing sowing.petscconf Executing: ['git', 'checkout', '-f', 'bc33abe1e9818d95968d6897bfbfc35ed0c18b51'] Do not need to rebuild SOWING Not checking for library in Download SOWING: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for headers Download SOWING: ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] ================================================================================ TEST checkSharedLibrary from config.packages.sowing(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.sowing(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C Checking for program /home/thl/petsc/fast_double/bin/bfort...found Defined make macro "BFORT" to "/home/thl/petsc/fast_double/bin/bfort" Checking for program /home/thl/petsc/fast_double/bin/doctext...found Defined make macro "DOCTEXT" to "/home/thl/petsc/fast_double/bin/doctext" Checking for program /home/thl/petsc/fast_double/bin/mapnames...found Defined make macro "MAPNAMES" to "/home/thl/petsc/fast_double/bin/mapnames" Checking for program /home/thl/petsc/fast_double/bin/bib2html...found Defined make macro "BIB2HTML" to "/home/thl/petsc/fast_double/bin/bib2html" Running /home/thl/petsc/fast_double/bin/bfort to generate fortran stubs ================================================================================ TEST alternateConfigureLibrary from config.packages.revolve(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.revolve(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.pthread(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.pthread(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.pthread(/global/home/thl/petsc/config/BuildSystem/config/packages/pthread.py:19) TESTING: configureLibrary from config.packages.pthread(config/BuildSystem/config/packages/pthread.py:19) Checks for pthread_barrier_t, cpu_set_t, and sys/sysctl.h ================================================================================== Checking for a functional pthread Checking for library in Compiler specific search PTHREAD: [] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [pthread_create] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char pthread_create(); static void _check_pthread_create() { pthread_create(); } int main() { _check_pthread_create();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'pthread_create' collect2: error: ld returned 1 exit status Popping language C Checking for library in Compiler specific search PTHREAD: ['libpthread.a'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [pthread_create] in library ['libpthread.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char pthread_create(); static void _check_pthread_create() { pthread_create(); } int main() { _check_pthread_create();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lpthread -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBPTHREAD" to "1" Popping language C Checking for headers Compiler specific search PTHREAD: ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['pthread.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.headers -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/pthread.h" 1 3 4 # 23 "/usr/include/pthread.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 24 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 25 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/sched.h" 1 3 4 # 27 "/usr/include/sched.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 28 "/usr/include/sched.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 31 "/usr/include/sched.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 35 "/usr/include/sched.h" 2 3 4 typedef __pid_t pid_t; # 1 "/usr/include/bits/sched.h" 1 3 4 # 74 "/usr/include/bits/sched.h" 3 4 struct sched_param { int __sched_priority; }; extern int clone (int (*__fn) (void *__arg), void *__child_stack, int __flags, void *__arg, ...) __attribute__ ((__nothrow__)); extern int unshare (int __flags) __attribute__ ((__nothrow__)); extern int sched_getcpu (void) __attribute__ ((__nothrow__)); struct __sched_param { int __sched_priority; }; # 116 "/usr/include/bits/sched.h" 3 4 typedef unsigned long int __cpu_mask; typedef struct { __cpu_mask __bits[1024 / (8 * sizeof (__cpu_mask))]; } cpu_set_t; # 199 "/usr/include/bits/sched.h" 3 4 extern int __sched_cpucount (size_t __setsize, const cpu_set_t *__setp) __attribute__ ((__nothrow__)); extern cpu_set_t *__sched_cpualloc (size_t __count) __attribute__ ((__nothrow__)) ; extern void __sched_cpufree (cpu_set_t *__set) __attribute__ ((__nothrow__)); # 44 "/usr/include/sched.h" 2 3 4 extern int sched_setparam (__pid_t __pid, __const struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_getparam (__pid_t __pid, struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_setscheduler (__pid_t __pid, int __policy, __const struct sched_param *__param) __attribute__ ((__nothrow__)); extern int sched_getscheduler (__pid_t __pid) __attribute__ ((__nothrow__)); extern int sched_yield (void) __attribute__ ((__nothrow__)); extern int sched_get_priority_max (int __algorithm) __attribute__ ((__nothrow__)); extern int sched_get_priority_min (int __algorithm) __attribute__ ((__nothrow__)); extern int sched_rr_get_interval (__pid_t __pid, struct timespec *__t) __attribute__ ((__nothrow__)); # 126 "/usr/include/sched.h" 3 4 # 26 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/time.h" 1 3 4 # 30 "/usr/include/time.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 39 "/usr/include/time.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 43 "/usr/include/time.h" 2 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 131 "/usr/include/time.h" 3 4 struct tm { int tm_sec; int tm_min; int tm_hour; int tm_mday; int tm_mon; int tm_year; int tm_wday; int tm_yday; int tm_isdst; long int tm_gmtoff; __const char *tm_zone; }; struct itimerspec { struct timespec it_interval; struct timespec it_value; }; struct sigevent; # 180 "/usr/include/time.h" 3 4 extern clock_t clock (void) __attribute__ ((__nothrow__)); extern time_t time (time_t *__timer) __attribute__ ((__nothrow__)); extern double difftime (time_t __time1, time_t __time0) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern time_t mktime (struct tm *__tp) __attribute__ ((__nothrow__)); extern size_t strftime (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp) __attribute__ ((__nothrow__)); # 215 "/usr/include/time.h" 3 4 # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 216 "/usr/include/time.h" 2 3 4 extern size_t strftime_l (char *__restrict __s, size_t __maxsize, __const char *__restrict __format, __const struct tm *__restrict __tp, __locale_t __loc) __attribute__ ((__nothrow__)); # 230 "/usr/include/time.h" 3 4 extern struct tm *gmtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *localtime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern struct tm *gmtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern struct tm *localtime_r (__const time_t *__restrict __timer, struct tm *__restrict __tp) __attribute__ ((__nothrow__)); extern char *asctime (__const struct tm *__tp) __attribute__ ((__nothrow__)); extern char *ctime (__const time_t *__timer) __attribute__ ((__nothrow__)); extern char *asctime_r (__const struct tm *__restrict __tp, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *ctime_r (__const time_t *__restrict __timer, char *__restrict __buf) __attribute__ ((__nothrow__)); extern char *__tzname[2]; extern int __daylight; extern long int __timezone; extern char *tzname[2]; extern void tzset (void) __attribute__ ((__nothrow__)); extern int daylight; extern long int timezone; extern int stime (__const time_t *__when) __attribute__ ((__nothrow__)); # 313 "/usr/include/time.h" 3 4 extern time_t timegm (struct tm *__tp) __attribute__ ((__nothrow__)); extern time_t timelocal (struct tm *__tp) __attribute__ ((__nothrow__)); extern int dysize (int __year) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 328 "/usr/include/time.h" 3 4 extern int nanosleep (__const struct timespec *__requested_time, struct timespec *__remaining); extern int clock_getres (clockid_t __clock_id, struct timespec *__res) __attribute__ ((__nothrow__)); extern int clock_gettime (clockid_t __clock_id, struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_settime (clockid_t __clock_id, __const struct timespec *__tp) __attribute__ ((__nothrow__)); extern int clock_nanosleep (clockid_t __clock_id, int __flags, __const struct timespec *__req, struct timespec *__rem); extern int clock_getcpuclockid (pid_t __pid, clockid_t *__clock_id) __attribute__ ((__nothrow__)); extern int timer_create (clockid_t __clock_id, struct sigevent *__restrict __evp, timer_t *__restrict __timerid) __attribute__ ((__nothrow__)); extern int timer_delete (timer_t __timerid) __attribute__ ((__nothrow__)); extern int timer_settime (timer_t __timerid, int __flags, __const struct itimerspec *__restrict __value, struct itimerspec *__restrict __ovalue) __attribute__ ((__nothrow__)); extern int timer_gettime (timer_t __timerid, struct itimerspec *__value) __attribute__ ((__nothrow__)); extern int timer_getoverrun (timer_t __timerid) __attribute__ ((__nothrow__)); # 417 "/usr/include/time.h" 3 4 # 27 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 29 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/bits/setjmp.h" 1 3 4 # 27 "/usr/include/bits/setjmp.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 28 "/usr/include/bits/setjmp.h" 2 3 4 typedef long int __jmp_buf[8]; # 30 "/usr/include/pthread.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 31 "/usr/include/pthread.h" 2 3 4 enum { PTHREAD_CREATE_JOINABLE, PTHREAD_CREATE_DETACHED }; enum { PTHREAD_MUTEX_TIMED_NP, PTHREAD_MUTEX_RECURSIVE_NP, PTHREAD_MUTEX_ERRORCHECK_NP, PTHREAD_MUTEX_ADAPTIVE_NP , PTHREAD_MUTEX_NORMAL = PTHREAD_MUTEX_TIMED_NP, PTHREAD_MUTEX_RECURSIVE = PTHREAD_MUTEX_RECURSIVE_NP, PTHREAD_MUTEX_ERRORCHECK = PTHREAD_MUTEX_ERRORCHECK_NP, PTHREAD_MUTEX_DEFAULT = PTHREAD_MUTEX_NORMAL }; enum { PTHREAD_MUTEX_STALLED, PTHREAD_MUTEX_STALLED_NP = PTHREAD_MUTEX_STALLED, PTHREAD_MUTEX_ROBUST, PTHREAD_MUTEX_ROBUST_NP = PTHREAD_MUTEX_ROBUST }; # 115 "/usr/include/pthread.h" 3 4 enum { PTHREAD_RWLOCK_PREFER_READER_NP, PTHREAD_RWLOCK_PREFER_WRITER_NP, PTHREAD_RWLOCK_PREFER_WRITER_NONRECURSIVE_NP, PTHREAD_RWLOCK_DEFAULT_NP = PTHREAD_RWLOCK_PREFER_READER_NP }; # 147 "/usr/include/pthread.h" 3 4 enum { PTHREAD_INHERIT_SCHED, PTHREAD_EXPLICIT_SCHED }; enum { PTHREAD_SCOPE_SYSTEM, PTHREAD_SCOPE_PROCESS }; enum { PTHREAD_PROCESS_PRIVATE, PTHREAD_PROCESS_SHARED }; # 182 "/usr/include/pthread.h" 3 4 struct _pthread_cleanup_buffer { void (*__routine) (void *); void *__arg; int __canceltype; struct _pthread_cleanup_buffer *__prev; }; enum { PTHREAD_CANCEL_ENABLE, PTHREAD_CANCEL_DISABLE }; enum { PTHREAD_CANCEL_DEFERRED, PTHREAD_CANCEL_ASYNCHRONOUS }; # 220 "/usr/include/pthread.h" 3 4 extern int pthread_create (pthread_t *__restrict __newthread, __const pthread_attr_t *__restrict __attr, void *(*__start_routine) (void *), void *__restrict __arg) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 3))); extern void pthread_exit (void *__retval) __attribute__ ((__noreturn__)); extern int pthread_join (pthread_t __th, void **__thread_return); # 263 "/usr/include/pthread.h" 3 4 extern int pthread_detach (pthread_t __th) __attribute__ ((__nothrow__)); extern pthread_t pthread_self (void) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int pthread_equal (pthread_t __thread1, pthread_t __thread2) __attribute__ ((__nothrow__)); extern int pthread_attr_init (pthread_attr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_destroy (pthread_attr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getdetachstate (__const pthread_attr_t *__attr, int *__detachstate) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setdetachstate (pthread_attr_t *__attr, int __detachstate) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getguardsize (__const pthread_attr_t *__attr, size_t *__guardsize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setguardsize (pthread_attr_t *__attr, size_t __guardsize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getschedparam (__const pthread_attr_t *__restrict __attr, struct sched_param *__restrict __param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setschedparam (pthread_attr_t *__restrict __attr, __const struct sched_param *__restrict __param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_getschedpolicy (__const pthread_attr_t *__restrict __attr, int *__restrict __policy) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setschedpolicy (pthread_attr_t *__attr, int __policy) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getinheritsched (__const pthread_attr_t *__restrict __attr, int *__restrict __inherit) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setinheritsched (pthread_attr_t *__attr, int __inherit) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getscope (__const pthread_attr_t *__restrict __attr, int *__restrict __scope) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setscope (pthread_attr_t *__attr, int __scope) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getstackaddr (__const pthread_attr_t *__restrict __attr, void **__restrict __stackaddr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) __attribute__ ((__deprecated__)); extern int pthread_attr_setstackaddr (pthread_attr_t *__attr, void *__stackaddr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) __attribute__ ((__deprecated__)); extern int pthread_attr_getstacksize (__const pthread_attr_t *__restrict __attr, size_t *__restrict __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_attr_setstacksize (pthread_attr_t *__attr, size_t __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_attr_getstack (__const pthread_attr_t *__restrict __attr, void **__restrict __stackaddr, size_t *__restrict __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2, 3))); extern int pthread_attr_setstack (pthread_attr_t *__attr, void *__stackaddr, size_t __stacksize) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 413 "/usr/include/pthread.h" 3 4 extern int pthread_setschedparam (pthread_t __target_thread, int __policy, __const struct sched_param *__param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))); extern int pthread_getschedparam (pthread_t __target_thread, int *__restrict __policy, struct sched_param *__restrict __param) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern int pthread_setschedprio (pthread_t __target_thread, int __prio) __attribute__ ((__nothrow__)); # 478 "/usr/include/pthread.h" 3 4 extern int pthread_once (pthread_once_t *__once_control, void (*__init_routine) (void)) __attribute__ ((__nonnull__ (1, 2))); # 490 "/usr/include/pthread.h" 3 4 extern int pthread_setcancelstate (int __state, int *__oldstate); extern int pthread_setcanceltype (int __type, int *__oldtype); extern int pthread_cancel (pthread_t __th); extern void pthread_testcancel (void); typedef struct { struct { __jmp_buf __cancel_jmp_buf; int __mask_was_saved; } __cancel_jmp_buf[1]; void *__pad[4]; } __pthread_unwind_buf_t __attribute__ ((__aligned__)); # 524 "/usr/include/pthread.h" 3 4 struct __pthread_cleanup_frame { void (*__cancel_routine) (void *); void *__cancel_arg; int __do_it; int __cancel_type; }; # 664 "/usr/include/pthread.h" 3 4 extern void __pthread_register_cancel (__pthread_unwind_buf_t *__buf) ; # 676 "/usr/include/pthread.h" 3 4 extern void __pthread_unregister_cancel (__pthread_unwind_buf_t *__buf) ; # 717 "/usr/include/pthread.h" 3 4 extern void __pthread_unwind_next (__pthread_unwind_buf_t *__buf) __attribute__ ((__noreturn__)) __attribute__ ((__weak__)) ; struct __jmp_buf_tag; extern int __sigsetjmp (struct __jmp_buf_tag *__env, int __savemask) __attribute__ ((__nothrow__)); extern int pthread_mutex_init (pthread_mutex_t *__mutex, __const pthread_mutexattr_t *__mutexattr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_destroy (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_trylock (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_lock (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_timedlock (pthread_mutex_t *__restrict __mutex, __const struct timespec *__restrict __abstime) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutex_unlock (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutex_getprioceiling (__const pthread_mutex_t * __restrict __mutex, int *__restrict __prioceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutex_setprioceiling (pthread_mutex_t *__restrict __mutex, int __prioceiling, int *__restrict __old_ceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 3))); extern int pthread_mutex_consistent (pthread_mutex_t *__mutex) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 790 "/usr/include/pthread.h" 3 4 extern int pthread_mutexattr_init (pthread_mutexattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_destroy (pthread_mutexattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getpshared (__const pthread_mutexattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setpshared (pthread_mutexattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_gettype (__const pthread_mutexattr_t *__restrict __attr, int *__restrict __kind) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_settype (pthread_mutexattr_t *__attr, int __kind) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getprotocol (__const pthread_mutexattr_t * __restrict __attr, int *__restrict __protocol) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setprotocol (pthread_mutexattr_t *__attr, int __protocol) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getprioceiling (__const pthread_mutexattr_t * __restrict __attr, int *__restrict __prioceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setprioceiling (pthread_mutexattr_t *__attr, int __prioceiling) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_mutexattr_getrobust (__const pthread_mutexattr_t *__attr, int *__robustness) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_mutexattr_setrobust (pthread_mutexattr_t *__attr, int __robustness) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 872 "/usr/include/pthread.h" 3 4 extern int pthread_rwlock_init (pthread_rwlock_t *__restrict __rwlock, __const pthread_rwlockattr_t *__restrict __attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_destroy (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_rdlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_tryrdlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_timedrdlock (pthread_rwlock_t *__restrict __rwlock, __const struct timespec *__restrict __abstime) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlock_wrlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_trywrlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlock_timedwrlock (pthread_rwlock_t *__restrict __rwlock, __const struct timespec *__restrict __abstime) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlock_unlock (pthread_rwlock_t *__rwlock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_init (pthread_rwlockattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_destroy (pthread_rwlockattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_getpshared (__const pthread_rwlockattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlockattr_setpshared (pthread_rwlockattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_rwlockattr_getkind_np (__const pthread_rwlockattr_t * __restrict __attr, int *__restrict __pref) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_rwlockattr_setkind_np (pthread_rwlockattr_t *__attr, int __pref) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_init (pthread_cond_t *__restrict __cond, __const pthread_condattr_t *__restrict __cond_attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_destroy (pthread_cond_t *__cond) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_signal (pthread_cond_t *__cond) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_broadcast (pthread_cond_t *__cond) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_cond_wait (pthread_cond_t *__restrict __cond, pthread_mutex_t *__restrict __mutex) __attribute__ ((__nonnull__ (1, 2))); # 984 "/usr/include/pthread.h" 3 4 extern int pthread_cond_timedwait (pthread_cond_t *__restrict __cond, pthread_mutex_t *__restrict __mutex, __const struct timespec *__restrict __abstime) __attribute__ ((__nonnull__ (1, 2, 3))); extern int pthread_condattr_init (pthread_condattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_condattr_destroy (pthread_condattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_condattr_getpshared (__const pthread_condattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_condattr_setpshared (pthread_condattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_condattr_getclock (__const pthread_condattr_t * __restrict __attr, __clockid_t *__restrict __clock_id) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_condattr_setclock (pthread_condattr_t *__attr, __clockid_t __clock_id) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 1028 "/usr/include/pthread.h" 3 4 extern int pthread_spin_init (pthread_spinlock_t *__lock, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_destroy (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_lock (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_trylock (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_spin_unlock (pthread_spinlock_t *__lock) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrier_init (pthread_barrier_t *__restrict __barrier, __const pthread_barrierattr_t *__restrict __attr, unsigned int __count) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrier_destroy (pthread_barrier_t *__barrier) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrier_wait (pthread_barrier_t *__barrier) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrierattr_init (pthread_barrierattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrierattr_destroy (pthread_barrierattr_t *__attr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_barrierattr_getpshared (__const pthread_barrierattr_t * __restrict __attr, int *__restrict __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int pthread_barrierattr_setpshared (pthread_barrierattr_t *__attr, int __pshared) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 1095 "/usr/include/pthread.h" 3 4 extern int pthread_key_create (pthread_key_t *__key, void (*__destr_function) (void *)) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int pthread_key_delete (pthread_key_t __key) __attribute__ ((__nothrow__)); extern void *pthread_getspecific (pthread_key_t __key) __attribute__ ((__nothrow__)); extern int pthread_setspecific (pthread_key_t __key, __const void *__pointer) __attribute__ ((__nothrow__)) ; extern int pthread_getcpuclockid (pthread_t __thread_id, __clockid_t *__clock_id) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 1129 "/usr/include/pthread.h" 3 4 extern int pthread_atfork (void (*__prepare) (void), void (*__parent) (void), void (*__child) (void)) __attribute__ ((__nothrow__)); # 1143 "/usr/include/pthread.h" 3 4 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['pthread.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C All intermediate test results are stored in /tmp/petsc-n3SpCv/config.packages.pthread Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.pthread/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c:6:20: warning: unused variable ‘a’ [-Wunused-variable] pthread_barrier_t *a; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { pthread_barrier_t *a; ; return 0; } Defined "HAVE_PTHREAD_BARRIER_T" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.pthread/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.pthread -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c:6:12: warning: unused variable ‘a’ [-Wunused-variable] cpu_set_t *a; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { cpu_set_t *a; ; return 0; } Defined "HAVE_SCHED_CPU_SET_T" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.packages.pthread /tmp/petsc-n3SpCv/config.packages.pthread/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.packages.pthread/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.packages.pthread/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.packages.pthread/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.packages.pthread/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.packages.pthread/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.packages.pthread/conftest.c" 2 # 1 "/usr/include/sys/sysctl.h" 1 3 4 # 22 "/usr/include/sys/sysctl.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 23 "/usr/include/sys/sysctl.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 25 "/usr/include/sys/sysctl.h" 2 3 4 # 44 "/usr/include/sys/sysctl.h" 3 4 # 1 "/usr/include/linux/sysctl.h" 1 3 4 # 28 "/usr/include/linux/sysctl.h" 3 4 # 1 "/usr/include/linux/kernel.h" 1 3 4 # 29 "/usr/include/linux/sysctl.h" 2 3 4 # 1 "/usr/include/linux/types.h" 1 3 4 # 30 "/usr/include/linux/sysctl.h" 2 3 4 struct completion; struct __sysctl_args { int *name; int nlen; void *oldval; size_t *oldlenp; void *newval; size_t newlen; unsigned long __unused[4]; }; enum { CTL_KERN=1, CTL_VM=2, CTL_NET=3, CTL_PROC=4, CTL_FS=5, CTL_DEBUG=6, CTL_DEV=7, CTL_BUS=8, CTL_ABI=9, CTL_CPU=10, CTL_ARLAN=254, CTL_S390DBF=5677, CTL_SUNRPC=7249, CTL_PM=9899, CTL_FRV=9898, }; enum { CTL_BUS_ISA=1 }; enum { INOTIFY_MAX_USER_INSTANCES=1, INOTIFY_MAX_USER_WATCHES=2, INOTIFY_MAX_QUEUED_EVENTS=3 }; enum { KERN_OSTYPE=1, KERN_OSRELEASE=2, KERN_OSREV=3, KERN_VERSION=4, KERN_SECUREMASK=5, KERN_PROF=6, KERN_NODENAME=7, KERN_DOMAINNAME=8, KERN_PANIC=15, KERN_REALROOTDEV=16, KERN_SPARC_REBOOT=21, KERN_CTLALTDEL=22, KERN_PRINTK=23, KERN_NAMETRANS=24, KERN_PPC_HTABRECLAIM=25, KERN_PPC_ZEROPAGED=26, KERN_PPC_POWERSAVE_NAP=27, KERN_MODPROBE=28, KERN_SG_BIG_BUFF=29, KERN_ACCT=30, KERN_PPC_L2CR=31, KERN_RTSIGNR=32, KERN_RTSIGMAX=33, KERN_SHMMAX=34, KERN_MSGMAX=35, KERN_MSGMNB=36, KERN_MSGPOOL=37, KERN_SYSRQ=38, KERN_MAX_THREADS=39, KERN_RANDOM=40, KERN_SHMALL=41, KERN_MSGMNI=42, KERN_SEM=43, KERN_SPARC_STOP_A=44, KERN_SHMMNI=45, KERN_OVERFLOWUID=46, KERN_OVERFLOWGID=47, KERN_SHMPATH=48, KERN_HOTPLUG=49, KERN_IEEE_EMULATION_WARNINGS=50, KERN_S390_USER_DEBUG_LOGGING=51, KERN_CORE_USES_PID=52, KERN_TAINTED=53, KERN_CADPID=54, KERN_PIDMAX=55, KERN_CORE_PATTERN=56, KERN_PANIC_ON_OOPS=57, KERN_HPPA_PWRSW=58, KERN_HPPA_UNALIGNED=59, KERN_PRINTK_RATELIMIT=60, KERN_PRINTK_RATELIMIT_BURST=61, KERN_PTY=62, KERN_NGROUPS_MAX=63, KERN_SPARC_SCONS_PWROFF=64, KERN_HZ_TIMER=65, KERN_UNKNOWN_NMI_PANIC=66, KERN_BOOTLOADER_TYPE=67, KERN_RANDOMIZE=68, KERN_SETUID_DUMPABLE=69, KERN_SPIN_RETRY=70, KERN_ACPI_VIDEO_FLAGS=71, KERN_IA64_UNALIGNED=72, KERN_COMPAT_LOG=73, KERN_MAX_LOCK_DEPTH=74, KERN_NMI_WATCHDOG=75, KERN_PANIC_ON_NMI=76, KERN_PANIC_ON_WARN=77, }; enum { VM_UNUSED1=1, VM_UNUSED2=2, VM_UNUSED3=3, VM_UNUSED4=4, VM_OVERCOMMIT_MEMORY=5, VM_UNUSED5=6, VM_UNUSED7=7, VM_UNUSED8=8, VM_UNUSED9=9, VM_PAGE_CLUSTER=10, VM_DIRTY_BACKGROUND=11, VM_DIRTY_RATIO=12, VM_DIRTY_WB_CS=13, VM_DIRTY_EXPIRE_CS=14, VM_NR_PDFLUSH_THREADS=15, VM_OVERCOMMIT_RATIO=16, VM_PAGEBUF=17, VM_HUGETLB_PAGES=18, VM_SWAPPINESS=19, VM_LOWMEM_RESERVE_RATIO=20, VM_MIN_FREE_KBYTES=21, VM_MAX_MAP_COUNT=22, VM_LAPTOP_MODE=23, VM_BLOCK_DUMP=24, VM_HUGETLB_GROUP=25, VM_VFS_CACHE_PRESSURE=26, VM_LEGACY_VA_LAYOUT=27, VM_SWAP_TOKEN_TIMEOUT=28, VM_DROP_PAGECACHE=29, VM_PERCPU_PAGELIST_FRACTION=30, VM_ZONE_RECLAIM_MODE=31, VM_MIN_UNMAPPED=32, VM_PANIC_ON_OOM=33, VM_VDSO_ENABLED=34, VM_MIN_SLAB=35, }; enum { NET_CORE=1, NET_ETHER=2, NET_802=3, NET_UNIX=4, NET_IPV4=5, NET_IPX=6, NET_ATALK=7, NET_NETROM=8, NET_AX25=9, NET_BRIDGE=10, NET_ROSE=11, NET_IPV6=12, NET_X25=13, NET_TR=14, NET_DECNET=15, NET_ECONET=16, NET_SCTP=17, NET_LLC=18, NET_NETFILTER=19, NET_DCCP=20, NET_IRDA=412, }; enum { RANDOM_POOLSIZE=1, RANDOM_ENTROPY_COUNT=2, RANDOM_READ_THRESH=3, RANDOM_WRITE_THRESH=4, RANDOM_BOOT_ID=5, RANDOM_UUID=6 }; enum { PTY_MAX=1, PTY_NR=2 }; enum { BUS_ISA_MEM_BASE=1, BUS_ISA_PORT_BASE=2, BUS_ISA_PORT_SHIFT=3 }; enum { NET_CORE_WMEM_MAX=1, NET_CORE_RMEM_MAX=2, NET_CORE_WMEM_DEFAULT=3, NET_CORE_RMEM_DEFAULT=4, NET_CORE_MAX_BACKLOG=6, NET_CORE_FASTROUTE=7, NET_CORE_MSG_COST=8, NET_CORE_MSG_BURST=9, NET_CORE_OPTMEM_MAX=10, NET_CORE_HOT_LIST_LENGTH=11, NET_CORE_DIVERT_VERSION=12, NET_CORE_NO_CONG_THRESH=13, NET_CORE_NO_CONG=14, NET_CORE_LO_CONG=15, NET_CORE_MOD_CONG=16, NET_CORE_DEV_WEIGHT=17, NET_CORE_SOMAXCONN=18, NET_CORE_BUDGET=19, NET_CORE_AEVENT_ETIME=20, NET_CORE_AEVENT_RSEQTH=21, NET_CORE_WARNINGS=22, }; enum { NET_UNIX_DESTROY_DELAY=1, NET_UNIX_DELETE_DELAY=2, NET_UNIX_MAX_DGRAM_QLEN=3, }; enum { NET_NF_CONNTRACK_MAX=1, NET_NF_CONNTRACK_TCP_TIMEOUT_SYN_SENT=2, NET_NF_CONNTRACK_TCP_TIMEOUT_SYN_RECV=3, NET_NF_CONNTRACK_TCP_TIMEOUT_ESTABLISHED=4, NET_NF_CONNTRACK_TCP_TIMEOUT_FIN_WAIT=5, NET_NF_CONNTRACK_TCP_TIMEOUT_CLOSE_WAIT=6, NET_NF_CONNTRACK_TCP_TIMEOUT_LAST_ACK=7, NET_NF_CONNTRACK_TCP_TIMEOUT_TIME_WAIT=8, NET_NF_CONNTRACK_TCP_TIMEOUT_CLOSE=9, NET_NF_CONNTRACK_UDP_TIMEOUT=10, NET_NF_CONNTRACK_UDP_TIMEOUT_STREAM=11, NET_NF_CONNTRACK_ICMP_TIMEOUT=12, NET_NF_CONNTRACK_GENERIC_TIMEOUT=13, NET_NF_CONNTRACK_BUCKETS=14, NET_NF_CONNTRACK_LOG_INVALID=15, NET_NF_CONNTRACK_TCP_TIMEOUT_MAX_RETRANS=16, NET_NF_CONNTRACK_TCP_LOOSE=17, NET_NF_CONNTRACK_TCP_BE_LIBERAL=18, NET_NF_CONNTRACK_TCP_MAX_RETRANS=19, NET_NF_CONNTRACK_SCTP_TIMEOUT_CLOSED=20, NET_NF_CONNTRACK_SCTP_TIMEOUT_COOKIE_WAIT=21, NET_NF_CONNTRACK_SCTP_TIMEOUT_COOKIE_ECHOED=22, NET_NF_CONNTRACK_SCTP_TIMEOUT_ESTABLISHED=23, NET_NF_CONNTRACK_SCTP_TIMEOUT_SHUTDOWN_SENT=24, NET_NF_CONNTRACK_SCTP_TIMEOUT_SHUTDOWN_RECD=25, NET_NF_CONNTRACK_SCTP_TIMEOUT_SHUTDOWN_ACK_SENT=26, NET_NF_CONNTRACK_COUNT=27, NET_NF_CONNTRACK_ICMPV6_TIMEOUT=28, NET_NF_CONNTRACK_FRAG6_TIMEOUT=29, NET_NF_CONNTRACK_FRAG6_LOW_THRESH=30, NET_NF_CONNTRACK_FRAG6_HIGH_THRESH=31, NET_NF_CONNTRACK_CHECKSUM=32, }; enum { NET_IPV4_FORWARD=8, NET_IPV4_DYNADDR=9, NET_IPV4_CONF=16, NET_IPV4_NEIGH=17, NET_IPV4_ROUTE=18, NET_IPV4_FIB_HASH=19, NET_IPV4_NETFILTER=20, NET_IPV4_TCP_TIMESTAMPS=33, NET_IPV4_TCP_WINDOW_SCALING=34, NET_IPV4_TCP_SACK=35, NET_IPV4_TCP_RETRANS_COLLAPSE=36, NET_IPV4_DEFAULT_TTL=37, NET_IPV4_AUTOCONFIG=38, NET_IPV4_NO_PMTU_DISC=39, NET_IPV4_TCP_SYN_RETRIES=40, NET_IPV4_IPFRAG_HIGH_THRESH=41, NET_IPV4_IPFRAG_LOW_THRESH=42, NET_IPV4_IPFRAG_TIME=43, NET_IPV4_TCP_MAX_KA_PROBES=44, NET_IPV4_TCP_KEEPALIVE_TIME=45, NET_IPV4_TCP_KEEPALIVE_PROBES=46, NET_IPV4_TCP_RETRIES1=47, NET_IPV4_TCP_RETRIES2=48, NET_IPV4_TCP_FIN_TIMEOUT=49, NET_IPV4_IP_MASQ_DEBUG=50, NET_TCP_SYNCOOKIES=51, NET_TCP_STDURG=52, NET_TCP_RFC1337=53, NET_TCP_SYN_TAILDROP=54, NET_TCP_MAX_SYN_BACKLOG=55, NET_IPV4_LOCAL_PORT_RANGE=56, NET_IPV4_ICMP_ECHO_IGNORE_ALL=57, NET_IPV4_ICMP_ECHO_IGNORE_BROADCASTS=58, NET_IPV4_ICMP_SOURCEQUENCH_RATE=59, NET_IPV4_ICMP_DESTUNREACH_RATE=60, NET_IPV4_ICMP_TIMEEXCEED_RATE=61, NET_IPV4_ICMP_PARAMPROB_RATE=62, NET_IPV4_ICMP_ECHOREPLY_RATE=63, NET_IPV4_ICMP_IGNORE_BOGUS_ERROR_RESPONSES=64, NET_IPV4_IGMP_MAX_MEMBERSHIPS=65, NET_TCP_TW_RECYCLE=66, NET_IPV4_ALWAYS_DEFRAG=67, NET_IPV4_TCP_KEEPALIVE_INTVL=68, NET_IPV4_INET_PEER_THRESHOLD=69, NET_IPV4_INET_PEER_MINTTL=70, NET_IPV4_INET_PEER_MAXTTL=71, NET_IPV4_INET_PEER_GC_MINTIME=72, NET_IPV4_INET_PEER_GC_MAXTIME=73, NET_TCP_ORPHAN_RETRIES=74, NET_TCP_ABORT_ON_OVERFLOW=75, NET_TCP_SYNACK_RETRIES=76, NET_TCP_MAX_ORPHANS=77, NET_TCP_MAX_TW_BUCKETS=78, NET_TCP_FACK=79, NET_TCP_REORDERING=80, NET_TCP_ECN=81, NET_TCP_DSACK=82, NET_TCP_MEM=83, NET_TCP_WMEM=84, NET_TCP_RMEM=85, NET_TCP_APP_WIN=86, NET_TCP_ADV_WIN_SCALE=87, NET_IPV4_NONLOCAL_BIND=88, NET_IPV4_ICMP_RATELIMIT=89, NET_IPV4_ICMP_RATEMASK=90, NET_TCP_TW_REUSE=91, NET_TCP_FRTO=92, NET_TCP_LOW_LATENCY=93, NET_IPV4_IPFRAG_SECRET_INTERVAL=94, NET_IPV4_IGMP_MAX_MSF=96, NET_TCP_NO_METRICS_SAVE=97, NET_TCP_DEFAULT_WIN_SCALE=105, NET_TCP_MODERATE_RCVBUF=106, NET_TCP_TSO_WIN_DIVISOR=107, NET_TCP_BIC_BETA=108, NET_IPV4_ICMP_ERRORS_USE_INBOUND_IFADDR=109, NET_TCP_CONG_CONTROL=110, NET_TCP_ABC=111, NET_IPV4_IPFRAG_MAX_DIST=112, NET_TCP_MTU_PROBING=113, NET_TCP_BASE_MSS=114, NET_IPV4_TCP_WORKAROUND_SIGNED_WINDOWS=115, NET_TCP_DMA_COPYBREAK=116, NET_TCP_SLOW_START_AFTER_IDLE=117, NET_CIPSOV4_CACHE_ENABLE=118, NET_CIPSOV4_CACHE_BUCKET_SIZE=119, NET_CIPSOV4_RBM_OPTFMT=120, NET_CIPSOV4_RBM_STRICTVALID=121, NET_TCP_AVAIL_CONG_CONTROL=122, NET_TCP_ALLOWED_CONG_CONTROL=123, NET_TCP_MAX_SSTHRESH=124, NET_TCP_FRTO_RESPONSE=125, }; enum { NET_IPV4_ROUTE_FLUSH=1, NET_IPV4_ROUTE_MIN_DELAY=2, NET_IPV4_ROUTE_MAX_DELAY=3, NET_IPV4_ROUTE_GC_THRESH=4, NET_IPV4_ROUTE_MAX_SIZE=5, NET_IPV4_ROUTE_GC_MIN_INTERVAL=6, NET_IPV4_ROUTE_GC_TIMEOUT=7, NET_IPV4_ROUTE_GC_INTERVAL=8, NET_IPV4_ROUTE_REDIRECT_LOAD=9, NET_IPV4_ROUTE_REDIRECT_NUMBER=10, NET_IPV4_ROUTE_REDIRECT_SILENCE=11, NET_IPV4_ROUTE_ERROR_COST=12, NET_IPV4_ROUTE_ERROR_BURST=13, NET_IPV4_ROUTE_GC_ELASTICITY=14, NET_IPV4_ROUTE_MTU_EXPIRES=15, NET_IPV4_ROUTE_MIN_PMTU=16, NET_IPV4_ROUTE_MIN_ADVMSS=17, NET_IPV4_ROUTE_SECRET_INTERVAL=18, NET_IPV4_ROUTE_GC_MIN_INTERVAL_MS=19, }; enum { NET_PROTO_CONF_ALL=-2, NET_PROTO_CONF_DEFAULT=-3 }; enum { NET_IPV4_CONF_FORWARDING=1, NET_IPV4_CONF_MC_FORWARDING=2, NET_IPV4_CONF_PROXY_ARP=3, NET_IPV4_CONF_ACCEPT_REDIRECTS=4, NET_IPV4_CONF_SECURE_REDIRECTS=5, NET_IPV4_CONF_SEND_REDIRECTS=6, NET_IPV4_CONF_SHARED_MEDIA=7, NET_IPV4_CONF_RP_FILTER=8, NET_IPV4_CONF_ACCEPT_SOURCE_ROUTE=9, NET_IPV4_CONF_BOOTP_RELAY=10, NET_IPV4_CONF_LOG_MARTIANS=11, NET_IPV4_CONF_TAG=12, NET_IPV4_CONF_ARPFILTER=13, NET_IPV4_CONF_MEDIUM_ID=14, NET_IPV4_CONF_NOXFRM=15, NET_IPV4_CONF_NOPOLICY=16, NET_IPV4_CONF_FORCE_IGMP_VERSION=17, NET_IPV4_CONF_ARP_ANNOUNCE=18, NET_IPV4_CONF_ARP_IGNORE=19, NET_IPV4_CONF_PROMOTE_SECONDARIES=20, NET_IPV4_CONF_ARP_ACCEPT=21, NET_IPV4_CONF_ARP_NOTIFY=22, NET_IPV4_CONF_ACCEPT_LOCAL=23, NET_IPV4_CONF_SRC_VMARK=24, NET_IPV4_CONF_PROXY_ARP_PVLAN=25, # 501 "/usr/include/linux/sysctl.h" 3 4 NET_IPV4_CONF_ROUTE_LOCALNET=26, __NET_IPV4_CONF_MAX }; enum { NET_IPV4_NF_CONNTRACK_MAX=1, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_SYN_SENT=2, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_SYN_RECV=3, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_ESTABLISHED=4, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_FIN_WAIT=5, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_CLOSE_WAIT=6, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_LAST_ACK=7, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_TIME_WAIT=8, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_CLOSE=9, NET_IPV4_NF_CONNTRACK_UDP_TIMEOUT=10, NET_IPV4_NF_CONNTRACK_UDP_TIMEOUT_STREAM=11, NET_IPV4_NF_CONNTRACK_ICMP_TIMEOUT=12, NET_IPV4_NF_CONNTRACK_GENERIC_TIMEOUT=13, NET_IPV4_NF_CONNTRACK_BUCKETS=14, NET_IPV4_NF_CONNTRACK_LOG_INVALID=15, NET_IPV4_NF_CONNTRACK_TCP_TIMEOUT_MAX_RETRANS=16, NET_IPV4_NF_CONNTRACK_TCP_LOOSE=17, NET_IPV4_NF_CONNTRACK_TCP_BE_LIBERAL=18, NET_IPV4_NF_CONNTRACK_TCP_MAX_RETRANS=19, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_CLOSED=20, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_COOKIE_WAIT=21, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_COOKIE_ECHOED=22, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_ESTABLISHED=23, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_SHUTDOWN_SENT=24, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_SHUTDOWN_RECD=25, NET_IPV4_NF_CONNTRACK_SCTP_TIMEOUT_SHUTDOWN_ACK_SENT=26, NET_IPV4_NF_CONNTRACK_COUNT=27, NET_IPV4_NF_CONNTRACK_CHECKSUM=28, }; enum { NET_IPV6_CONF=16, NET_IPV6_NEIGH=17, NET_IPV6_ROUTE=18, NET_IPV6_ICMP=19, NET_IPV6_BINDV6ONLY=20, NET_IPV6_IP6FRAG_HIGH_THRESH=21, NET_IPV6_IP6FRAG_LOW_THRESH=22, NET_IPV6_IP6FRAG_TIME=23, NET_IPV6_IP6FRAG_SECRET_INTERVAL=24, NET_IPV6_MLD_MAX_MSF=25, }; enum { NET_IPV6_ROUTE_FLUSH=1, NET_IPV6_ROUTE_GC_THRESH=2, NET_IPV6_ROUTE_MAX_SIZE=3, NET_IPV6_ROUTE_GC_MIN_INTERVAL=4, NET_IPV6_ROUTE_GC_TIMEOUT=5, NET_IPV6_ROUTE_GC_INTERVAL=6, NET_IPV6_ROUTE_GC_ELASTICITY=7, NET_IPV6_ROUTE_MTU_EXPIRES=8, NET_IPV6_ROUTE_MIN_ADVMSS=9, NET_IPV6_ROUTE_GC_MIN_INTERVAL_MS=10 }; enum { NET_IPV6_FORWARDING=1, NET_IPV6_HOP_LIMIT=2, NET_IPV6_MTU=3, NET_IPV6_ACCEPT_RA=4, NET_IPV6_ACCEPT_REDIRECTS=5, NET_IPV6_AUTOCONF=6, NET_IPV6_DAD_TRANSMITS=7, NET_IPV6_RTR_SOLICITS=8, NET_IPV6_RTR_SOLICIT_INTERVAL=9, NET_IPV6_RTR_SOLICIT_DELAY=10, NET_IPV6_USE_TEMPADDR=11, NET_IPV6_TEMP_VALID_LFT=12, NET_IPV6_TEMP_PREFERED_LFT=13, NET_IPV6_REGEN_MAX_RETRY=14, NET_IPV6_MAX_DESYNC_FACTOR=15, NET_IPV6_MAX_ADDRESSES=16, NET_IPV6_FORCE_MLD_VERSION=17, NET_IPV6_ACCEPT_RA_DEFRTR=18, NET_IPV6_ACCEPT_RA_PINFO=19, NET_IPV6_ACCEPT_RA_RTR_PREF=20, NET_IPV6_RTR_PROBE_INTERVAL=21, NET_IPV6_ACCEPT_RA_RT_INFO_MAX_PLEN=22, NET_IPV6_PROXY_NDP=23, NET_IPV6_ACCEPT_SOURCE_ROUTE=25, __NET_IPV6_MAX }; enum { NET_IPV6_ICMP_RATELIMIT=1 }; enum { NET_NEIGH_MCAST_SOLICIT=1, NET_NEIGH_UCAST_SOLICIT=2, NET_NEIGH_APP_SOLICIT=3, NET_NEIGH_RETRANS_TIME=4, NET_NEIGH_REACHABLE_TIME=5, NET_NEIGH_DELAY_PROBE_TIME=6, NET_NEIGH_GC_STALE_TIME=7, NET_NEIGH_UNRES_QLEN=8, NET_NEIGH_PROXY_QLEN=9, NET_NEIGH_ANYCAST_DELAY=10, NET_NEIGH_PROXY_DELAY=11, NET_NEIGH_LOCKTIME=12, NET_NEIGH_GC_INTERVAL=13, NET_NEIGH_GC_THRESH1=14, NET_NEIGH_GC_THRESH2=15, NET_NEIGH_GC_THRESH3=16, NET_NEIGH_RETRANS_TIME_MS=17, NET_NEIGH_REACHABLE_TIME_MS=18, __NET_NEIGH_MAX }; enum { NET_DCCP_DEFAULT=1, }; enum { NET_IPX_PPROP_BROADCASTING=1, NET_IPX_FORWARDING=2 }; enum { NET_LLC2=1, NET_LLC_STATION=2, }; enum { NET_LLC2_TIMEOUT=1, }; enum { NET_LLC_STATION_ACK_TIMEOUT=1, }; enum { NET_LLC2_ACK_TIMEOUT=1, NET_LLC2_P_TIMEOUT=2, NET_LLC2_REJ_TIMEOUT=3, NET_LLC2_BUSY_TIMEOUT=4, }; enum { NET_ATALK_AARP_EXPIRY_TIME=1, NET_ATALK_AARP_TICK_TIME=2, NET_ATALK_AARP_RETRANSMIT_LIMIT=3, NET_ATALK_AARP_RESOLVE_TIME=4 }; enum { NET_NETROM_DEFAULT_PATH_QUALITY=1, NET_NETROM_OBSOLESCENCE_COUNT_INITIALISER=2, NET_NETROM_NETWORK_TTL_INITIALISER=3, NET_NETROM_TRANSPORT_TIMEOUT=4, NET_NETROM_TRANSPORT_MAXIMUM_TRIES=5, NET_NETROM_TRANSPORT_ACKNOWLEDGE_DELAY=6, NET_NETROM_TRANSPORT_BUSY_DELAY=7, NET_NETROM_TRANSPORT_REQUESTED_WINDOW_SIZE=8, NET_NETROM_TRANSPORT_NO_ACTIVITY_TIMEOUT=9, NET_NETROM_ROUTING_CONTROL=10, NET_NETROM_LINK_FAILS_COUNT=11, NET_NETROM_RESET=12 }; enum { NET_AX25_IP_DEFAULT_MODE=1, NET_AX25_DEFAULT_MODE=2, NET_AX25_BACKOFF_TYPE=3, NET_AX25_CONNECT_MODE=4, NET_AX25_STANDARD_WINDOW=5, NET_AX25_EXTENDED_WINDOW=6, NET_AX25_T1_TIMEOUT=7, NET_AX25_T2_TIMEOUT=8, NET_AX25_T3_TIMEOUT=9, NET_AX25_IDLE_TIMEOUT=10, NET_AX25_N2=11, NET_AX25_PACLEN=12, NET_AX25_PROTOCOL=13, NET_AX25_DAMA_SLAVE_TIMEOUT=14 }; enum { NET_ROSE_RESTART_REQUEST_TIMEOUT=1, NET_ROSE_CALL_REQUEST_TIMEOUT=2, NET_ROSE_RESET_REQUEST_TIMEOUT=3, NET_ROSE_CLEAR_REQUEST_TIMEOUT=4, NET_ROSE_ACK_HOLD_BACK_TIMEOUT=5, NET_ROSE_ROUTING_CONTROL=6, NET_ROSE_LINK_FAIL_TIMEOUT=7, NET_ROSE_MAX_VCS=8, NET_ROSE_WINDOW_SIZE=9, NET_ROSE_NO_ACTIVITY_TIMEOUT=10 }; enum { NET_X25_RESTART_REQUEST_TIMEOUT=1, NET_X25_CALL_REQUEST_TIMEOUT=2, NET_X25_RESET_REQUEST_TIMEOUT=3, NET_X25_CLEAR_REQUEST_TIMEOUT=4, NET_X25_ACK_HOLD_BACK_TIMEOUT=5, NET_X25_FORWARD=6 }; enum { NET_TR_RIF_TIMEOUT=1 }; enum { NET_DECNET_NODE_TYPE = 1, NET_DECNET_NODE_ADDRESS = 2, NET_DECNET_NODE_NAME = 3, NET_DECNET_DEFAULT_DEVICE = 4, NET_DECNET_TIME_WAIT = 5, NET_DECNET_DN_COUNT = 6, NET_DECNET_DI_COUNT = 7, NET_DECNET_DR_COUNT = 8, NET_DECNET_DST_GC_INTERVAL = 9, NET_DECNET_CONF = 10, NET_DECNET_NO_FC_MAX_CWND = 11, NET_DECNET_MEM = 12, NET_DECNET_RMEM = 13, NET_DECNET_WMEM = 14, NET_DECNET_DEBUG_LEVEL = 255 }; enum { NET_DECNET_CONF_LOOPBACK = -2, NET_DECNET_CONF_DDCMP = -3, NET_DECNET_CONF_PPP = -4, NET_DECNET_CONF_X25 = -5, NET_DECNET_CONF_GRE = -6, NET_DECNET_CONF_ETHER = -7 }; enum { NET_DECNET_CONF_DEV_PRIORITY = 1, NET_DECNET_CONF_DEV_T1 = 2, NET_DECNET_CONF_DEV_T2 = 3, NET_DECNET_CONF_DEV_T3 = 4, NET_DECNET_CONF_DEV_FORWARDING = 5, NET_DECNET_CONF_DEV_BLKSIZE = 6, NET_DECNET_CONF_DEV_STATE = 7 }; enum { NET_SCTP_RTO_INITIAL = 1, NET_SCTP_RTO_MIN = 2, NET_SCTP_RTO_MAX = 3, NET_SCTP_RTO_ALPHA = 4, NET_SCTP_RTO_BETA = 5, NET_SCTP_VALID_COOKIE_LIFE = 6, NET_SCTP_ASSOCIATION_MAX_RETRANS = 7, NET_SCTP_PATH_MAX_RETRANS = 8, NET_SCTP_MAX_INIT_RETRANSMITS = 9, NET_SCTP_HB_INTERVAL = 10, NET_SCTP_PRESERVE_ENABLE = 11, NET_SCTP_MAX_BURST = 12, NET_SCTP_ADDIP_ENABLE = 13, NET_SCTP_PRSCTP_ENABLE = 14, NET_SCTP_SNDBUF_POLICY = 15, NET_SCTP_SACK_TIMEOUT = 16, NET_SCTP_RCVBUF_POLICY = 17, }; enum { NET_BRIDGE_NF_CALL_ARPTABLES = 1, NET_BRIDGE_NF_CALL_IPTABLES = 2, NET_BRIDGE_NF_CALL_IP6TABLES = 3, NET_BRIDGE_NF_FILTER_VLAN_TAGGED = 4, NET_BRIDGE_NF_FILTER_PPPOE_TAGGED = 5, }; enum { NET_IRDA_DISCOVERY=1, NET_IRDA_DEVNAME=2, NET_IRDA_DEBUG=3, NET_IRDA_FAST_POLL=4, NET_IRDA_DISCOVERY_SLOTS=5, NET_IRDA_DISCOVERY_TIMEOUT=6, NET_IRDA_SLOT_TIMEOUT=7, NET_IRDA_MAX_BAUD_RATE=8, NET_IRDA_MIN_TX_TURN_TIME=9, NET_IRDA_MAX_TX_DATA_SIZE=10, NET_IRDA_MAX_TX_WINDOW=11, NET_IRDA_MAX_NOREPLY_TIME=12, NET_IRDA_WARN_NOREPLY_TIME=13, NET_IRDA_LAP_KEEPALIVE_TIME=14, }; enum { FS_NRINODE=1, FS_STATINODE=2, FS_MAXINODE=3, FS_NRDQUOT=4, FS_MAXDQUOT=5, FS_NRFILE=6, FS_MAXFILE=7, FS_DENTRY=8, FS_NRSUPER=9, FS_MAXSUPER=10, FS_OVERFLOWUID=11, FS_OVERFLOWGID=12, FS_LEASES=13, FS_DIR_NOTIFY=14, FS_LEASE_TIME=15, FS_DQSTATS=16, FS_XFS=17, FS_AIO_NR=18, FS_AIO_MAX_NR=19, FS_INOTIFY=20, FS_OCFS2=988, }; enum { FS_DQ_LOOKUPS = 1, FS_DQ_DROPS = 2, FS_DQ_READS = 3, FS_DQ_WRITES = 4, FS_DQ_CACHE_HITS = 5, FS_DQ_ALLOCATED = 6, FS_DQ_FREE = 7, FS_DQ_SYNCS = 8, FS_DQ_WARNINGS = 9, }; enum { DEV_CDROM=1, DEV_HWMON=2, DEV_PARPORT=3, DEV_RAID=4, DEV_MAC_HID=5, DEV_SCSI=6, DEV_IPMI=7, }; enum { DEV_CDROM_INFO=1, DEV_CDROM_AUTOCLOSE=2, DEV_CDROM_AUTOEJECT=3, DEV_CDROM_DEBUG=4, DEV_CDROM_LOCK=5, DEV_CDROM_CHECK_MEDIA=6 }; enum { DEV_PARPORT_DEFAULT=-3 }; enum { DEV_RAID_SPEED_LIMIT_MIN=1, DEV_RAID_SPEED_LIMIT_MAX=2 }; enum { DEV_PARPORT_DEFAULT_TIMESLICE=1, DEV_PARPORT_DEFAULT_SPINTIME=2 }; enum { DEV_PARPORT_SPINTIME=1, DEV_PARPORT_BASE_ADDR=2, DEV_PARPORT_IRQ=3, DEV_PARPORT_DMA=4, DEV_PARPORT_MODES=5, DEV_PARPORT_DEVICES=6, DEV_PARPORT_AUTOPROBE=16 }; enum { DEV_PARPORT_DEVICES_ACTIVE=-3, }; enum { DEV_PARPORT_DEVICE_TIMESLICE=1, }; enum { DEV_MAC_HID_KEYBOARD_SENDS_LINUX_KEYCODES=1, DEV_MAC_HID_KEYBOARD_LOCK_KEYCODES=2, DEV_MAC_HID_MOUSE_BUTTON_EMULATION=3, DEV_MAC_HID_MOUSE_BUTTON2_KEYCODE=4, DEV_MAC_HID_MOUSE_BUTTON3_KEYCODE=5, DEV_MAC_HID_ADB_MOUSE_SENDS_KEYCODES=6 }; enum { DEV_SCSI_LOGGING_LEVEL=1, }; enum { DEV_IPMI_POWEROFF_POWERCYCLE=1, }; enum { ABI_DEFHANDLER_COFF=1, ABI_DEFHANDLER_ELF=2, ABI_DEFHANDLER_LCALL7=3, ABI_DEFHANDLER_LIBCSO=4, ABI_TRACE=5, ABI_FAKE_UTSNAME=6, }; # 45 "/usr/include/sys/sysctl.h" 2 3 4 # 64 "/usr/include/sys/sysctl.h" 3 4 extern int sysctl (int *__name, int __nlen, void *__oldval, size_t *__oldlenp, void *__newval, size_t __newlen) __attribute__ ((__nothrow__)); # 3 "/tmp/petsc-n3SpCv/config.packages.pthread/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSCTL_H" to "1" ================================================================================ TEST checkSharedLibrary from config.packages.pthread(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.pthread(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.pami(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.pami(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.opengles(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.opengles(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mpe(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.mpe(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.memkind(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.memkind(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.libjpeg(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.libjpeg(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/lgrind...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/lgrind...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/lgrind...not found Checking for program /usr/lib64/qt-3.3/bin/lgrind...not found Checking for program /usr/local/bin/lgrind...not found Checking for program /bin/lgrind...not found Checking for program /usr/bin/lgrind...not found Checking for program /usr/local/sbin/lgrind...not found Checking for program /usr/sbin/lgrind...not found Checking for program /sbin/lgrind...not found Checking for program /opt/ganglia/bin/lgrind...not found Checking for program /opt/ganglia/sbin/lgrind...not found Checking for program /opt/ibutils/bin/lgrind...not found Checking for program /usr/java/latest/bin/lgrind...not found Checking for program /opt/maui/bin/lgrind...not found Checking for program /opt/torque/bin/lgrind...not found Checking for program /opt/torque/sbin/lgrind...not found Checking for program /opt/rocks/bin/lgrind...not found Checking for program /opt/rocks/sbin/lgrind...not found Checking for program /opt/condor/bin/lgrind...not found Checking for program /opt/condor/sbin/lgrind...not found Checking for program /home/thl/lgrind...not found Checking for program /home/thl/petsc/bin/win32fe/lgrind...not found ================================================================================ TEST alternateConfigureLibrary from config.packages.gmp(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.gmp(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mpfr(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.mpfr(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.opengl(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.opengl(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.glut(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.glut(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.giflib(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.giflib(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.scientificpython(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.scientificpython(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.fiat(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.fiat(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ctetgen(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.ctetgen(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.concurrencykit(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.concurrencykit(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST locateC2html from config.packages.c2html(/global/home/thl/petsc/config/BuildSystem/config/packages/c2html.py:32) TESTING: locateC2html from config.packages.c2html(config/BuildSystem/config/packages/c2html.py:32) Looking for default C2html executable Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/netcdf4-python/1.2.6-foss-2016a-Python-2.7.11/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/numpy/1.10.4-foss-2016a-Python-2.7.11/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/sbin/c2html...not found Checking for program /share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/c2html...not found Checking for program /share/apps/software/rhel6/software/GCCcore/4.9.3/bin/c2html...not found Checking for program /usr/lib64/qt-3.3/bin/c2html...not found Checking for program /usr/local/bin/c2html...not found Checking for program /bin/c2html...not found Checking for program /usr/bin/c2html...not found Checking for program /usr/local/sbin/c2html...not found Checking for program /usr/sbin/c2html...not found Checking for program /sbin/c2html...not found Checking for program /opt/ganglia/bin/c2html...not found Checking for program /opt/ganglia/sbin/c2html...not found Checking for program /opt/ibutils/bin/c2html...not found Checking for program /usr/java/latest/bin/c2html...not found Checking for program /opt/maui/bin/c2html...not found Checking for program /opt/torque/bin/c2html...not found Checking for program /opt/torque/sbin/c2html...not found Checking for program /opt/rocks/bin/c2html...not found Checking for program /opt/rocks/sbin/c2html...not found Checking for program /opt/condor/bin/c2html...not found Checking for program /opt/condor/sbin/c2html...not found Checking for program /home/thl/c2html...not found Checking for program /home/thl/petsc/bin/win32fe/c2html...not found ================================================================================ TEST alternateConfigureLibrary from config.packages.boost(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.boost(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.hwloc(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.hwloc(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.X(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.X(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.X(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.X(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional X Checking for library in Compiler specific search X: [] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [XSetWMName] in library [] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char XSetWMName(); static void _check_XSetWMName() { XSetWMName(); } int main() { _check_XSetWMName();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'XSetWMName' collect2: error: ld returned 1 exit status Popping language C Checking for library in Compiler specific search X: ['libX11.a'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [XSetWMName] in library ['libX11.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char XSetWMName(); static void _check_XSetWMName() { XSetWMName(); } int main() { _check_XSetWMName();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -lX11 -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBX11" to "1" Popping language C Checking for headers Compiler specific search X: ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['X11/Xlib.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.headers -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/usr/include/X11/Xlib.h" 1 3 4 # 38 "/usr/include/X11/Xlib.h" 3 4 # 1 "/usr/include/sys/types.h" 1 3 4 # 26 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 39 "/usr/include/X11/Xlib.h" 2 3 4 # 1 "/usr/include/X11/X.h" 1 3 4 # 66 "/usr/include/X11/X.h" 3 4 typedef unsigned long XID; typedef unsigned long Mask; typedef unsigned long Atom; typedef unsigned long VisualID; typedef unsigned long Time; # 96 "/usr/include/X11/X.h" 3 4 typedef XID Window; typedef XID Drawable; typedef XID Font; typedef XID Pixmap; typedef XID Cursor; typedef XID Colormap; typedef XID GContext; typedef XID KeySym; typedef unsigned char KeyCode; # 45 "/usr/include/X11/Xlib.h" 2 3 4 # 1 "/usr/include/X11/Xfuncproto.h" 1 3 4 # 48 "/usr/include/X11/Xlib.h" 2 3 4 # 1 "/usr/include/X11/Xosdefs.h" 1 3 4 # 49 "/usr/include/X11/Xlib.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 52 "/usr/include/X11/Xlib.h" 2 3 4 # 62 "/usr/include/X11/Xlib.h" 3 4 extern int _Xmblen( char *str, int len ); # 80 "/usr/include/X11/Xlib.h" 3 4 typedef char *XPointer; # 148 "/usr/include/X11/Xlib.h" 3 4 typedef struct _XExtData { int number; struct _XExtData *next; int (*free_private)( struct _XExtData *extension ); XPointer private_data; } XExtData; typedef struct { int extension; int major_opcode; int first_event; int first_error; } XExtCodes; typedef struct { int depth; int bits_per_pixel; int scanline_pad; } XPixmapFormatValues; typedef struct { int function; unsigned long plane_mask; unsigned long foreground; unsigned long background; int line_width; int line_style; int cap_style; int join_style; int fill_style; int fill_rule; int arc_mode; Pixmap tile; Pixmap stipple; int ts_x_origin; int ts_y_origin; Font font; int subwindow_mode; int graphics_exposures; int clip_x_origin; int clip_y_origin; Pixmap clip_mask; int dash_offset; char dashes; } XGCValues; typedef struct _XGC *GC; typedef struct { XExtData *ext_data; VisualID visualid; int class; unsigned long red_mask, green_mask, blue_mask; int bits_per_rgb; int map_entries; } Visual; typedef struct { int depth; int nvisuals; Visual *visuals; } Depth; struct _XDisplay; typedef struct { XExtData *ext_data; struct _XDisplay *display; Window root; int width, height; int mwidth, mheight; int ndepths; Depth *depths; int root_depth; Visual *root_visual; GC default_gc; Colormap cmap; unsigned long white_pixel; unsigned long black_pixel; int max_maps, min_maps; int backing_store; int save_unders; long root_input_mask; } Screen; typedef struct { XExtData *ext_data; int depth; int bits_per_pixel; int scanline_pad; } ScreenFormat; typedef struct { Pixmap background_pixmap; unsigned long background_pixel; Pixmap border_pixmap; unsigned long border_pixel; int bit_gravity; int win_gravity; int backing_store; unsigned long backing_planes; unsigned long backing_pixel; int save_under; long event_mask; long do_not_propagate_mask; int override_redirect; Colormap colormap; Cursor cursor; } XSetWindowAttributes; typedef struct { int x, y; int width, height; int border_width; int depth; Visual *visual; Window root; int class; int bit_gravity; int win_gravity; int backing_store; unsigned long backing_planes; unsigned long backing_pixel; int save_under; Colormap colormap; int map_installed; int map_state; long all_event_masks; long your_event_mask; long do_not_propagate_mask; int override_redirect; Screen *screen; } XWindowAttributes; typedef struct { int family; int length; char *address; } XHostAddress; typedef struct { int typelength; int valuelength; char *type; char *value; } XServerInterpretedAddress; typedef struct _XImage { int width, height; int xoffset; int format; char *data; int byte_order; int bitmap_unit; int bitmap_bit_order; int bitmap_pad; int depth; int bytes_per_line; int bits_per_pixel; unsigned long red_mask; unsigned long green_mask; unsigned long blue_mask; XPointer obdata; struct funcs { struct _XImage *(*create_image)( struct _XDisplay* , Visual* , unsigned int , int , int , char* , unsigned int , unsigned int , int , int ); int (*destroy_image) (struct _XImage *); unsigned long (*get_pixel) (struct _XImage *, int, int); int (*put_pixel) (struct _XImage *, int, int, unsigned long); struct _XImage *(*sub_image)(struct _XImage *, int, int, unsigned int, unsigned int); int (*add_pixel) (struct _XImage *, long); } f; } XImage; typedef struct { int x, y; int width, height; int border_width; Window sibling; int stack_mode; } XWindowChanges; typedef struct { unsigned long pixel; unsigned short red, green, blue; char flags; char pad; } XColor; typedef struct { short x1, y1, x2, y2; } XSegment; typedef struct { short x, y; } XPoint; typedef struct { short x, y; unsigned short width, height; } XRectangle; typedef struct { short x, y; unsigned short width, height; short angle1, angle2; } XArc; typedef struct { int key_click_percent; int bell_percent; int bell_pitch; int bell_duration; int led; int led_mode; int key; int auto_repeat_mode; } XKeyboardControl; typedef struct { int key_click_percent; int bell_percent; unsigned int bell_pitch, bell_duration; unsigned long led_mask; int global_auto_repeat; char auto_repeats[32]; } XKeyboardState; typedef struct { Time time; short x, y; } XTimeCoord; typedef struct { int max_keypermod; KeyCode *modifiermap; } XModifierKeymap; # 487 "/usr/include/X11/Xlib.h" 3 4 typedef struct _XDisplay Display; struct _XPrivate; struct _XrmHashBucketRec; typedef struct { XExtData *ext_data; struct _XPrivate *private1; int fd; int private2; int proto_major_version; int proto_minor_version; char *vendor; XID private3; XID private4; XID private5; int private6; XID (*resource_alloc)( struct _XDisplay* ); int byte_order; int bitmap_unit; int bitmap_pad; int bitmap_bit_order; int nformats; ScreenFormat *pixmap_format; int private8; int release; struct _XPrivate *private9, *private10; int qlen; unsigned long last_request_read; unsigned long request; XPointer private11; XPointer private12; XPointer private13; XPointer private14; unsigned max_request_size; struct _XrmHashBucketRec *db; int (*private15)( struct _XDisplay* ); char *display_name; int default_screen; int nscreens; Screen *screens; unsigned long motion_buffer; unsigned long private16; int min_keycode; int max_keycode; XPointer private17; XPointer private18; int private19; char *xdefaults; } *_XPrivDisplay; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Window root; Window subwindow; Time time; int x, y; int x_root, y_root; unsigned int state; unsigned int keycode; int same_screen; } XKeyEvent; typedef XKeyEvent XKeyPressedEvent; typedef XKeyEvent XKeyReleasedEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Window root; Window subwindow; Time time; int x, y; int x_root, y_root; unsigned int state; unsigned int button; int same_screen; } XButtonEvent; typedef XButtonEvent XButtonPressedEvent; typedef XButtonEvent XButtonReleasedEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Window root; Window subwindow; Time time; int x, y; int x_root, y_root; unsigned int state; char is_hint; int same_screen; } XMotionEvent; typedef XMotionEvent XPointerMovedEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Window root; Window subwindow; Time time; int x, y; int x_root, y_root; int mode; int detail; int same_screen; int focus; unsigned int state; } XCrossingEvent; typedef XCrossingEvent XEnterWindowEvent; typedef XCrossingEvent XLeaveWindowEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; int mode; int detail; } XFocusChangeEvent; typedef XFocusChangeEvent XFocusInEvent; typedef XFocusChangeEvent XFocusOutEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; char key_vector[32]; } XKeymapEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; int x, y; int width, height; int count; } XExposeEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Drawable drawable; int x, y; int width, height; int count; int major_code; int minor_code; } XGraphicsExposeEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Drawable drawable; int major_code; int minor_code; } XNoExposeEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; int state; } XVisibilityEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window parent; Window window; int x, y; int width, height; int border_width; int override_redirect; } XCreateWindowEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; } XDestroyWindowEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; int from_configure; } XUnmapEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; int override_redirect; } XMapEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window parent; Window window; } XMapRequestEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; Window parent; int x, y; int override_redirect; } XReparentEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; int x, y; int width, height; int border_width; Window above; int override_redirect; } XConfigureEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; int x, y; } XGravityEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; int width, height; } XResizeRequestEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window parent; Window window; int x, y; int width, height; int border_width; Window above; int detail; unsigned long value_mask; } XConfigureRequestEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window event; Window window; int place; } XCirculateEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window parent; Window window; int place; } XCirculateRequestEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Atom atom; Time time; int state; } XPropertyEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Atom selection; Time time; } XSelectionClearEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window owner; Window requestor; Atom selection; Atom target; Atom property; Time time; } XSelectionRequestEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window requestor; Atom selection; Atom target; Atom property; Time time; } XSelectionEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Colormap colormap; int new; int state; } XColormapEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; Atom message_type; int format; union { char b[20]; short s[10]; long l[5]; } data; } XClientMessageEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; int request; int first_keycode; int count; } XMappingEvent; typedef struct { int type; Display *display; XID resourceid; unsigned long serial; unsigned char error_code; unsigned char request_code; unsigned char minor_code; } XErrorEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; Window window; } XAnyEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; int extension; int evtype; } XGenericEvent; typedef struct { int type; unsigned long serial; int send_event; Display *display; int extension; int evtype; unsigned int cookie; void *data; } XGenericEventCookie; typedef union _XEvent { int type; XAnyEvent xany; XKeyEvent xkey; XButtonEvent xbutton; XMotionEvent xmotion; XCrossingEvent xcrossing; XFocusChangeEvent xfocus; XExposeEvent xexpose; XGraphicsExposeEvent xgraphicsexpose; XNoExposeEvent xnoexpose; XVisibilityEvent xvisibility; XCreateWindowEvent xcreatewindow; XDestroyWindowEvent xdestroywindow; XUnmapEvent xunmap; XMapEvent xmap; XMapRequestEvent xmaprequest; XReparentEvent xreparent; XConfigureEvent xconfigure; XGravityEvent xgravity; XResizeRequestEvent xresizerequest; XConfigureRequestEvent xconfigurerequest; XCirculateEvent xcirculate; XCirculateRequestEvent xcirculaterequest; XPropertyEvent xproperty; XSelectionClearEvent xselectionclear; XSelectionRequestEvent xselectionrequest; XSelectionEvent xselection; XColormapEvent xcolormap; XClientMessageEvent xclient; XMappingEvent xmapping; XErrorEvent xerror; XKeymapEvent xkeymap; XGenericEvent xgeneric; XGenericEventCookie xcookie; long pad[24]; } XEvent; typedef struct { short lbearing; short rbearing; short width; short ascent; short descent; unsigned short attributes; } XCharStruct; typedef struct { Atom name; unsigned long card32; } XFontProp; typedef struct { XExtData *ext_data; Font fid; unsigned direction; unsigned min_char_or_byte2; unsigned max_char_or_byte2; unsigned min_byte1; unsigned max_byte1; int all_chars_exist; unsigned default_char; int n_properties; XFontProp *properties; XCharStruct min_bounds; XCharStruct max_bounds; XCharStruct *per_char; int ascent; int descent; } XFontStruct; typedef struct { char *chars; int nchars; int delta; Font font; } XTextItem; typedef struct { unsigned char byte1; unsigned char byte2; } XChar2b; typedef struct { XChar2b *chars; int nchars; int delta; Font font; } XTextItem16; typedef union { Display *display; GC gc; Visual *visual; Screen *screen; ScreenFormat *pixmap_format; XFontStruct *font; } XEDataObject; typedef struct { XRectangle max_ink_extent; XRectangle max_logical_extent; } XFontSetExtents; typedef struct _XOM *XOM; typedef struct _XOC *XOC, *XFontSet; typedef struct { char *chars; int nchars; int delta; XFontSet font_set; } XmbTextItem; typedef struct { wchar_t *chars; int nchars; int delta; XFontSet font_set; } XwcTextItem; # 1121 "/usr/include/X11/Xlib.h" 3 4 typedef struct { int charset_count; char **charset_list; } XOMCharSetList; typedef enum { XOMOrientation_LTR_TTB, XOMOrientation_RTL_TTB, XOMOrientation_TTB_LTR, XOMOrientation_TTB_RTL, XOMOrientation_Context } XOrientation; typedef struct { int num_orientation; XOrientation *orientation; } XOMOrientation; typedef struct { int num_font; XFontStruct **font_struct_list; char **font_name_list; } XOMFontInfo; typedef struct _XIM *XIM; typedef struct _XIC *XIC; typedef void (*XIMProc)( XIM, XPointer, XPointer ); typedef int (*XICProc)( XIC, XPointer, XPointer ); typedef void (*XIDProc)( Display*, XPointer, XPointer ); typedef unsigned long XIMStyle; typedef struct { unsigned short count_styles; XIMStyle *supported_styles; } XIMStyles; # 1233 "/usr/include/X11/Xlib.h" 3 4 typedef void *XVaNestedList; typedef struct { XPointer client_data; XIMProc callback; } XIMCallback; typedef struct { XPointer client_data; XICProc callback; } XICCallback; typedef unsigned long XIMFeedback; # 1257 "/usr/include/X11/Xlib.h" 3 4 typedef struct _XIMText { unsigned short length; XIMFeedback *feedback; int encoding_is_wchar; union { char *multi_byte; wchar_t *wide_char; } string; } XIMText; typedef unsigned long XIMPreeditState; typedef struct _XIMPreeditStateNotifyCallbackStruct { XIMPreeditState state; } XIMPreeditStateNotifyCallbackStruct; typedef unsigned long XIMResetState; typedef unsigned long XIMStringConversionFeedback; # 1291 "/usr/include/X11/Xlib.h" 3 4 typedef struct _XIMStringConversionText { unsigned short length; XIMStringConversionFeedback *feedback; int encoding_is_wchar; union { char *mbs; wchar_t *wcs; } string; } XIMStringConversionText; typedef unsigned short XIMStringConversionPosition; typedef unsigned short XIMStringConversionType; typedef unsigned short XIMStringConversionOperation; typedef enum { XIMForwardChar, XIMBackwardChar, XIMForwardWord, XIMBackwardWord, XIMCaretUp, XIMCaretDown, XIMNextLine, XIMPreviousLine, XIMLineStart, XIMLineEnd, XIMAbsolutePosition, XIMDontChange } XIMCaretDirection; typedef struct _XIMStringConversionCallbackStruct { XIMStringConversionPosition position; XIMCaretDirection direction; XIMStringConversionOperation operation; unsigned short factor; XIMStringConversionText *text; } XIMStringConversionCallbackStruct; typedef struct _XIMPreeditDrawCallbackStruct { int caret; int chg_first; int chg_length; XIMText *text; } XIMPreeditDrawCallbackStruct; typedef enum { XIMIsInvisible, XIMIsPrimary, XIMIsSecondary } XIMCaretStyle; typedef struct _XIMPreeditCaretCallbackStruct { int position; XIMCaretDirection direction; XIMCaretStyle style; } XIMPreeditCaretCallbackStruct; typedef enum { XIMTextType, XIMBitmapType } XIMStatusDataType; typedef struct _XIMStatusDrawCallbackStruct { XIMStatusDataType type; union { XIMText *text; Pixmap bitmap; } data; } XIMStatusDrawCallbackStruct; typedef struct _XIMHotKeyTrigger { KeySym keysym; int modifier; int modifier_mask; } XIMHotKeyTrigger; typedef struct _XIMHotKeyTriggers { int num_hot_key; XIMHotKeyTrigger *key; } XIMHotKeyTriggers; typedef unsigned long XIMHotKeyState; typedef struct { unsigned short count_values; char **supported_values; } XIMValuesList; extern int _Xdebug; extern XFontStruct *XLoadQueryFont( Display* , const char* ); extern XFontStruct *XQueryFont( Display* , XID ); extern XTimeCoord *XGetMotionEvents( Display* , Window , Time , Time , int* ); extern XModifierKeymap *XDeleteModifiermapEntry( XModifierKeymap* , KeyCode , int ); extern XModifierKeymap *XGetModifierMapping( Display* ); extern XModifierKeymap *XInsertModifiermapEntry( XModifierKeymap* , KeyCode , int ); extern XModifierKeymap *XNewModifiermap( int ); extern XImage *XCreateImage( Display* , Visual* , unsigned int , int , int , char* , unsigned int , unsigned int , int , int ); extern int XInitImage( XImage* ); extern XImage *XGetImage( Display* , Drawable , int , int , unsigned int , unsigned int , unsigned long , int ); extern XImage *XGetSubImage( Display* , Drawable , int , int , unsigned int , unsigned int , unsigned long , int , XImage* , int , int ); extern Display *XOpenDisplay( const char* ); extern void XrmInitialize( void ); extern char *XFetchBytes( Display* , int* ); extern char *XFetchBuffer( Display* , int* , int ); extern char *XGetAtomName( Display* , Atom ); extern int XGetAtomNames( Display* , Atom* , int , char** ); extern char *XGetDefault( Display* , const char* , const char* ); extern char *XDisplayName( const char* ); extern char *XKeysymToString( KeySym ); extern int (*XSynchronize( Display* , int ))( Display* ); extern int (*XSetAfterFunction( Display* , int (*) ( Display* ) ))( Display* ); extern Atom XInternAtom( Display* , const char* , int ); extern int XInternAtoms( Display* , char** , int , int , Atom* ); extern Colormap XCopyColormapAndFree( Display* , Colormap ); extern Colormap XCreateColormap( Display* , Window , Visual* , int ); extern Cursor XCreatePixmapCursor( Display* , Pixmap , Pixmap , XColor* , XColor* , unsigned int , unsigned int ); extern Cursor XCreateGlyphCursor( Display* , Font , Font , unsigned int , unsigned int , XColor const * , XColor const * ); extern Cursor XCreateFontCursor( Display* , unsigned int ); extern Font XLoadFont( Display* , const char* ); extern GC XCreateGC( Display* , Drawable , unsigned long , XGCValues* ); extern GContext XGContextFromGC( GC ); extern void XFlushGC( Display* , GC ); extern Pixmap XCreatePixmap( Display* , Drawable , unsigned int , unsigned int , unsigned int ); extern Pixmap XCreateBitmapFromData( Display* , Drawable , const char* , unsigned int , unsigned int ); extern Pixmap XCreatePixmapFromBitmapData( Display* , Drawable , char* , unsigned int , unsigned int , unsigned long , unsigned long , unsigned int ); extern Window XCreateSimpleWindow( Display* , Window , int , int , unsigned int , unsigned int , unsigned int , unsigned long , unsigned long ); extern Window XGetSelectionOwner( Display* , Atom ); extern Window XCreateWindow( Display* , Window , int , int , unsigned int , unsigned int , unsigned int , int , unsigned int , Visual* , unsigned long , XSetWindowAttributes* ); extern Colormap *XListInstalledColormaps( Display* , Window , int* ); extern char **XListFonts( Display* , const char* , int , int* ); extern char **XListFontsWithInfo( Display* , const char* , int , int* , XFontStruct** ); extern char **XGetFontPath( Display* , int* ); extern char **XListExtensions( Display* , int* ); extern Atom *XListProperties( Display* , Window , int* ); extern XHostAddress *XListHosts( Display* , int* , int* ); __attribute__((deprecated)) extern KeySym XKeycodeToKeysym( Display* , KeyCode , int ); extern KeySym XLookupKeysym( XKeyEvent* , int ); extern KeySym *XGetKeyboardMapping( Display* , KeyCode , int , int* ); extern KeySym XStringToKeysym( const char* ); extern long XMaxRequestSize( Display* ); extern long XExtendedMaxRequestSize( Display* ); extern char *XResourceManagerString( Display* ); extern char *XScreenResourceString( Screen* ); extern unsigned long XDisplayMotionBufferSize( Display* ); extern VisualID XVisualIDFromVisual( Visual* ); extern int XInitThreads( void ); extern void XLockDisplay( Display* ); extern void XUnlockDisplay( Display* ); extern XExtCodes *XInitExtension( Display* , const char* ); extern XExtCodes *XAddExtension( Display* ); extern XExtData *XFindOnExtensionList( XExtData** , int ); extern XExtData **XEHeadOfExtensionList( XEDataObject ); extern Window XRootWindow( Display* , int ); extern Window XDefaultRootWindow( Display* ); extern Window XRootWindowOfScreen( Screen* ); extern Visual *XDefaultVisual( Display* , int ); extern Visual *XDefaultVisualOfScreen( Screen* ); extern GC XDefaultGC( Display* , int ); extern GC XDefaultGCOfScreen( Screen* ); extern unsigned long XBlackPixel( Display* , int ); extern unsigned long XWhitePixel( Display* , int ); extern unsigned long XAllPlanes( void ); extern unsigned long XBlackPixelOfScreen( Screen* ); extern unsigned long XWhitePixelOfScreen( Screen* ); extern unsigned long XNextRequest( Display* ); extern unsigned long XLastKnownRequestProcessed( Display* ); extern char *XServerVendor( Display* ); extern char *XDisplayString( Display* ); extern Colormap XDefaultColormap( Display* , int ); extern Colormap XDefaultColormapOfScreen( Screen* ); extern Display *XDisplayOfScreen( Screen* ); extern Screen *XScreenOfDisplay( Display* , int ); extern Screen *XDefaultScreenOfDisplay( Display* ); extern long XEventMaskOfScreen( Screen* ); extern int XScreenNumberOfScreen( Screen* ); typedef int (*XErrorHandler) ( Display* , XErrorEvent* ); extern XErrorHandler XSetErrorHandler ( XErrorHandler ); typedef int (*XIOErrorHandler) ( Display* ); extern XIOErrorHandler XSetIOErrorHandler ( XIOErrorHandler ); extern XPixmapFormatValues *XListPixmapFormats( Display* , int* ); extern int *XListDepths( Display* , int , int* ); extern int XReconfigureWMWindow( Display* , Window , int , unsigned int , XWindowChanges* ); extern int XGetWMProtocols( Display* , Window , Atom** , int* ); extern int XSetWMProtocols( Display* , Window , Atom* , int ); extern int XIconifyWindow( Display* , Window , int ); extern int XWithdrawWindow( Display* , Window , int ); extern int XGetCommand( Display* , Window , char*** , int* ); extern int XGetWMColormapWindows( Display* , Window , Window** , int* ); extern int XSetWMColormapWindows( Display* , Window , Window* , int ); extern void XFreeStringList( char** ); extern int XSetTransientForHint( Display* , Window , Window ); extern int XActivateScreenSaver( Display* ); extern int XAddHost( Display* , XHostAddress* ); extern int XAddHosts( Display* , XHostAddress* , int ); extern int XAddToExtensionList( struct _XExtData** , XExtData* ); extern int XAddToSaveSet( Display* , Window ); extern int XAllocColor( Display* , Colormap , XColor* ); extern int XAllocColorCells( Display* , Colormap , int , unsigned long* , unsigned int , unsigned long* , unsigned int ); extern int XAllocColorPlanes( Display* , Colormap , int , unsigned long* , int , int , int , int , unsigned long* , unsigned long* , unsigned long* ); extern int XAllocNamedColor( Display* , Colormap , const char* , XColor* , XColor* ); extern int XAllowEvents( Display* , int , Time ); extern int XAutoRepeatOff( Display* ); extern int XAutoRepeatOn( Display* ); extern int XBell( Display* , int ); extern int XBitmapBitOrder( Display* ); extern int XBitmapPad( Display* ); extern int XBitmapUnit( Display* ); extern int XCellsOfScreen( Screen* ); extern int XChangeActivePointerGrab( Display* , unsigned int , Cursor , Time ); extern int XChangeGC( Display* , GC , unsigned long , XGCValues* ); extern int XChangeKeyboardControl( Display* , unsigned long , XKeyboardControl* ); extern int XChangeKeyboardMapping( Display* , int , int , KeySym* , int ); extern int XChangePointerControl( Display* , int , int , int , int , int ); extern int XChangeProperty( Display* , Window , Atom , Atom , int , int , const unsigned char* , int ); extern int XChangeSaveSet( Display* , Window , int ); extern int XChangeWindowAttributes( Display* , Window , unsigned long , XSetWindowAttributes* ); extern int XCheckIfEvent( Display* , XEvent* , int (*) ( Display* , XEvent* , XPointer ) , XPointer ); extern int XCheckMaskEvent( Display* , long , XEvent* ); extern int XCheckTypedEvent( Display* , int , XEvent* ); extern int XCheckTypedWindowEvent( Display* , Window , int , XEvent* ); extern int XCheckWindowEvent( Display* , Window , long , XEvent* ); extern int XCirculateSubwindows( Display* , Window , int ); extern int XCirculateSubwindowsDown( Display* , Window ); extern int XCirculateSubwindowsUp( Display* , Window ); extern int XClearArea( Display* , Window , int , int , unsigned int , unsigned int , int ); extern int XClearWindow( Display* , Window ); extern int XCloseDisplay( Display* ); extern int XConfigureWindow( Display* , Window , unsigned int , XWindowChanges* ); extern int XConnectionNumber( Display* ); extern int XConvertSelection( Display* , Atom , Atom , Atom , Window , Time ); extern int XCopyArea( Display* , Drawable , Drawable , GC , int , int , unsigned int , unsigned int , int , int ); extern int XCopyGC( Display* , GC , unsigned long , GC ); extern int XCopyPlane( Display* , Drawable , Drawable , GC , int , int , unsigned int , unsigned int , int , int , unsigned long ); extern int XDefaultDepth( Display* , int ); extern int XDefaultDepthOfScreen( Screen* ); extern int XDefaultScreen( Display* ); extern int XDefineCursor( Display* , Window , Cursor ); extern int XDeleteProperty( Display* , Window , Atom ); extern int XDestroyWindow( Display* , Window ); extern int XDestroySubwindows( Display* , Window ); extern int XDoesBackingStore( Screen* ); extern int XDoesSaveUnders( Screen* ); extern int XDisableAccessControl( Display* ); extern int XDisplayCells( Display* , int ); extern int XDisplayHeight( Display* , int ); extern int XDisplayHeightMM( Display* , int ); extern int XDisplayKeycodes( Display* , int* , int* ); extern int XDisplayPlanes( Display* , int ); extern int XDisplayWidth( Display* , int ); extern int XDisplayWidthMM( Display* , int ); extern int XDrawArc( Display* , Drawable , GC , int , int , unsigned int , unsigned int , int , int ); extern int XDrawArcs( Display* , Drawable , GC , XArc* , int ); extern int XDrawImageString( Display* , Drawable , GC , int , int , const char* , int ); extern int XDrawImageString16( Display* , Drawable , GC , int , int , const XChar2b* , int ); extern int XDrawLine( Display* , Drawable , GC , int , int , int , int ); extern int XDrawLines( Display* , Drawable , GC , XPoint* , int , int ); extern int XDrawPoint( Display* , Drawable , GC , int , int ); extern int XDrawPoints( Display* , Drawable , GC , XPoint* , int , int ); extern int XDrawRectangle( Display* , Drawable , GC , int , int , unsigned int , unsigned int ); extern int XDrawRectangles( Display* , Drawable , GC , XRectangle* , int ); extern int XDrawSegments( Display* , Drawable , GC , XSegment* , int ); extern int XDrawString( Display* , Drawable , GC , int , int , const char* , int ); extern int XDrawString16( Display* , Drawable , GC , int , int , const XChar2b* , int ); extern int XDrawText( Display* , Drawable , GC , int , int , XTextItem* , int ); extern int XDrawText16( Display* , Drawable , GC , int , int , XTextItem16* , int ); extern int XEnableAccessControl( Display* ); extern int XEventsQueued( Display* , int ); extern int XFetchName( Display* , Window , char** ); extern int XFillArc( Display* , Drawable , GC , int , int , unsigned int , unsigned int , int , int ); extern int XFillArcs( Display* , Drawable , GC , XArc* , int ); extern int XFillPolygon( Display* , Drawable , GC , XPoint* , int , int , int ); extern int XFillRectangle( Display* , Drawable , GC , int , int , unsigned int , unsigned int ); extern int XFillRectangles( Display* , Drawable , GC , XRectangle* , int ); extern int XFlush( Display* ); extern int XForceScreenSaver( Display* , int ); extern int XFree( void* ); extern int XFreeColormap( Display* , Colormap ); extern int XFreeColors( Display* , Colormap , unsigned long* , int , unsigned long ); extern int XFreeCursor( Display* , Cursor ); extern int XFreeExtensionList( char** ); extern int XFreeFont( Display* , XFontStruct* ); extern int XFreeFontInfo( char** , XFontStruct* , int ); extern int XFreeFontNames( char** ); extern int XFreeFontPath( char** ); extern int XFreeGC( Display* , GC ); extern int XFreeModifiermap( XModifierKeymap* ); extern int XFreePixmap( Display* , Pixmap ); extern int XGeometry( Display* , int , const char* , const char* , unsigned int , unsigned int , unsigned int , int , int , int* , int* , int* , int* ); extern int XGetErrorDatabaseText( Display* , const char* , const char* , const char* , char* , int ); extern int XGetErrorText( Display* , int , char* , int ); extern int XGetFontProperty( XFontStruct* , Atom , unsigned long* ); extern int XGetGCValues( Display* , GC , unsigned long , XGCValues* ); extern int XGetGeometry( Display* , Drawable , Window* , int* , int* , unsigned int* , unsigned int* , unsigned int* , unsigned int* ); extern int XGetIconName( Display* , Window , char** ); extern int XGetInputFocus( Display* , Window* , int* ); extern int XGetKeyboardControl( Display* , XKeyboardState* ); extern int XGetPointerControl( Display* , int* , int* , int* ); extern int XGetPointerMapping( Display* , unsigned char* , int ); extern int XGetScreenSaver( Display* , int* , int* , int* , int* ); extern int XGetTransientForHint( Display* , Window , Window* ); extern int XGetWindowProperty( Display* , Window , Atom , long , long , int , Atom , Atom* , int* , unsigned long* , unsigned long* , unsigned char** ); extern int XGetWindowAttributes( Display* , Window , XWindowAttributes* ); extern int XGrabButton( Display* , unsigned int , unsigned int , Window , int , unsigned int , int , int , Window , Cursor ); extern int XGrabKey( Display* , int , unsigned int , Window , int , int , int ); extern int XGrabKeyboard( Display* , Window , int , int , int , Time ); extern int XGrabPointer( Display* , Window , int , unsigned int , int , int , Window , Cursor , Time ); extern int XGrabServer( Display* ); extern int XHeightMMOfScreen( Screen* ); extern int XHeightOfScreen( Screen* ); extern int XIfEvent( Display* , XEvent* , int (*) ( Display* , XEvent* , XPointer ) , XPointer ); extern int XImageByteOrder( Display* ); extern int XInstallColormap( Display* , Colormap ); extern KeyCode XKeysymToKeycode( Display* , KeySym ); extern int XKillClient( Display* , XID ); extern int XLookupColor( Display* , Colormap , const char* , XColor* , XColor* ); extern int XLowerWindow( Display* , Window ); extern int XMapRaised( Display* , Window ); extern int XMapSubwindows( Display* , Window ); extern int XMapWindow( Display* , Window ); extern int XMaskEvent( Display* , long , XEvent* ); extern int XMaxCmapsOfScreen( Screen* ); extern int XMinCmapsOfScreen( Screen* ); extern int XMoveResizeWindow( Display* , Window , int , int , unsigned int , unsigned int ); extern int XMoveWindow( Display* , Window , int , int ); extern int XNextEvent( Display* , XEvent* ); extern int XNoOp( Display* ); extern int XParseColor( Display* , Colormap , const char* , XColor* ); extern int XParseGeometry( const char* , int* , int* , unsigned int* , unsigned int* ); extern int XPeekEvent( Display* , XEvent* ); extern int XPeekIfEvent( Display* , XEvent* , int (*) ( Display* , XEvent* , XPointer ) , XPointer ); extern int XPending( Display* ); extern int XPlanesOfScreen( Screen* ); extern int XProtocolRevision( Display* ); extern int XProtocolVersion( Display* ); extern int XPutBackEvent( Display* , XEvent* ); extern int XPutImage( Display* , Drawable , GC , XImage* , int , int , int , int , unsigned int , unsigned int ); extern int XQLength( Display* ); extern int XQueryBestCursor( Display* , Drawable , unsigned int , unsigned int , unsigned int* , unsigned int* ); extern int XQueryBestSize( Display* , int , Drawable , unsigned int , unsigned int , unsigned int* , unsigned int* ); extern int XQueryBestStipple( Display* , Drawable , unsigned int , unsigned int , unsigned int* , unsigned int* ); extern int XQueryBestTile( Display* , Drawable , unsigned int , unsigned int , unsigned int* , unsigned int* ); extern int XQueryColor( Display* , Colormap , XColor* ); extern int XQueryColors( Display* , Colormap , XColor* , int ); extern int XQueryExtension( Display* , const char* , int* , int* , int* ); extern int XQueryKeymap( Display* , char [32] ); extern int XQueryPointer( Display* , Window , Window* , Window* , int* , int* , int* , int* , unsigned int* ); extern int XQueryTextExtents( Display* , XID , const char* , int , int* , int* , int* , XCharStruct* ); extern int XQueryTextExtents16( Display* , XID , const XChar2b* , int , int* , int* , int* , XCharStruct* ); extern int XQueryTree( Display* , Window , Window* , Window* , Window** , unsigned int* ); extern int XRaiseWindow( Display* , Window ); extern int XReadBitmapFile( Display* , Drawable , const char* , unsigned int* , unsigned int* , Pixmap* , int* , int* ); extern int XReadBitmapFileData( const char* , unsigned int* , unsigned int* , unsigned char** , int* , int* ); extern int XRebindKeysym( Display* , KeySym , KeySym* , int , const unsigned char* , int ); extern int XRecolorCursor( Display* , Cursor , XColor* , XColor* ); extern int XRefreshKeyboardMapping( XMappingEvent* ); extern int XRemoveFromSaveSet( Display* , Window ); extern int XRemoveHost( Display* , XHostAddress* ); extern int XRemoveHosts( Display* , XHostAddress* , int ); extern int XReparentWindow( Display* , Window , Window , int , int ); extern int XResetScreenSaver( Display* ); extern int XResizeWindow( Display* , Window , unsigned int , unsigned int ); extern int XRestackWindows( Display* , Window* , int ); extern int XRotateBuffers( Display* , int ); extern int XRotateWindowProperties( Display* , Window , Atom* , int , int ); extern int XScreenCount( Display* ); extern int XSelectInput( Display* , Window , long ); extern int XSendEvent( Display* , Window , int , long , XEvent* ); extern int XSetAccessControl( Display* , int ); extern int XSetArcMode( Display* , GC , int ); extern int XSetBackground( Display* , GC , unsigned long ); extern int XSetClipMask( Display* , GC , Pixmap ); extern int XSetClipOrigin( Display* , GC , int , int ); extern int XSetClipRectangles( Display* , GC , int , int , XRectangle* , int , int ); extern int XSetCloseDownMode( Display* , int ); extern int XSetCommand( Display* , Window , char** , int ); extern int XSetDashes( Display* , GC , int , const char* , int ); extern int XSetFillRule( Display* , GC , int ); extern int XSetFillStyle( Display* , GC , int ); extern int XSetFont( Display* , GC , Font ); extern int XSetFontPath( Display* , char** , int ); extern int XSetForeground( Display* , GC , unsigned long ); extern int XSetFunction( Display* , GC , int ); extern int XSetGraphicsExposures( Display* , GC , int ); extern int XSetIconName( Display* , Window , const char* ); extern int XSetInputFocus( Display* , Window , int , Time ); extern int XSetLineAttributes( Display* , GC , unsigned int , int , int , int ); extern int XSetModifierMapping( Display* , XModifierKeymap* ); extern int XSetPlaneMask( Display* , GC , unsigned long ); extern int XSetPointerMapping( Display* , const unsigned char* , int ); extern int XSetScreenSaver( Display* , int , int , int , int ); extern int XSetSelectionOwner( Display* , Atom , Window , Time ); extern int XSetState( Display* , GC , unsigned long , unsigned long , int , unsigned long ); extern int XSetStipple( Display* , GC , Pixmap ); extern int XSetSubwindowMode( Display* , GC , int ); extern int XSetTSOrigin( Display* , GC , int , int ); extern int XSetTile( Display* , GC , Pixmap ); extern int XSetWindowBackground( Display* , Window , unsigned long ); extern int XSetWindowBackgroundPixmap( Display* , Window , Pixmap ); extern int XSetWindowBorder( Display* , Window , unsigned long ); extern int XSetWindowBorderPixmap( Display* , Window , Pixmap ); extern int XSetWindowBorderWidth( Display* , Window , unsigned int ); extern int XSetWindowColormap( Display* , Window , Colormap ); extern int XStoreBuffer( Display* , const char* , int , int ); extern int XStoreBytes( Display* , const char* , int ); extern int XStoreColor( Display* , Colormap , XColor* ); extern int XStoreColors( Display* , Colormap , XColor* , int ); extern int XStoreName( Display* , Window , const char* ); extern int XStoreNamedColor( Display* , Colormap , const char* , unsigned long , int ); extern int XSync( Display* , int ); extern int XTextExtents( XFontStruct* , const char* , int , int* , int* , int* , XCharStruct* ); extern int XTextExtents16( XFontStruct* , const XChar2b* , int , int* , int* , int* , XCharStruct* ); extern int XTextWidth( XFontStruct* , const char* , int ); extern int XTextWidth16( XFontStruct* , const XChar2b* , int ); extern int XTranslateCoordinates( Display* , Window , Window , int , int , int* , int* , Window* ); extern int XUndefineCursor( Display* , Window ); extern int XUngrabButton( Display* , unsigned int , unsigned int , Window ); extern int XUngrabKey( Display* , int , unsigned int , Window ); extern int XUngrabKeyboard( Display* , Time ); extern int XUngrabPointer( Display* , Time ); extern int XUngrabServer( Display* ); extern int XUninstallColormap( Display* , Colormap ); extern int XUnloadFont( Display* , Font ); extern int XUnmapSubwindows( Display* , Window ); extern int XUnmapWindow( Display* , Window ); extern int XVendorRelease( Display* ); extern int XWarpPointer( Display* , Window , Window , int , int , unsigned int , unsigned int , int , int ); extern int XWidthMMOfScreen( Screen* ); extern int XWidthOfScreen( Screen* ); extern int XWindowEvent( Display* , Window , long , XEvent* ); extern int XWriteBitmapFile( Display* , const char* , Pixmap , unsigned int , unsigned int , int , int ); extern int XSupportsLocale (void); extern char *XSetLocaleModifiers( const char* ); extern XOM XOpenOM( Display* , struct _XrmHashBucketRec* , const char* , const char* ); extern int XCloseOM( XOM ); extern char *XSetOMValues( XOM , ... ) __attribute__ ((__sentinel__(0))); extern char *XGetOMValues( XOM , ... ) __attribute__ ((__sentinel__(0))); extern Display *XDisplayOfOM( XOM ); extern char *XLocaleOfOM( XOM ); extern XOC XCreateOC( XOM , ... ) __attribute__ ((__sentinel__(0))); extern void XDestroyOC( XOC ); extern XOM XOMOfOC( XOC ); extern char *XSetOCValues( XOC , ... ) __attribute__ ((__sentinel__(0))); extern char *XGetOCValues( XOC , ... ) __attribute__ ((__sentinel__(0))); extern XFontSet XCreateFontSet( Display* , const char* , char*** , int* , char** ); extern void XFreeFontSet( Display* , XFontSet ); extern int XFontsOfFontSet( XFontSet , XFontStruct*** , char*** ); extern char *XBaseFontNameListOfFontSet( XFontSet ); extern char *XLocaleOfFontSet( XFontSet ); extern int XContextDependentDrawing( XFontSet ); extern int XDirectionalDependentDrawing( XFontSet ); extern int XContextualDrawing( XFontSet ); extern XFontSetExtents *XExtentsOfFontSet( XFontSet ); extern int XmbTextEscapement( XFontSet , const char* , int ); extern int XwcTextEscapement( XFontSet , const wchar_t* , int ); extern int Xutf8TextEscapement( XFontSet , const char* , int ); extern int XmbTextExtents( XFontSet , const char* , int , XRectangle* , XRectangle* ); extern int XwcTextExtents( XFontSet , const wchar_t* , int , XRectangle* , XRectangle* ); extern int Xutf8TextExtents( XFontSet , const char* , int , XRectangle* , XRectangle* ); extern int XmbTextPerCharExtents( XFontSet , const char* , int , XRectangle* , XRectangle* , int , int* , XRectangle* , XRectangle* ); extern int XwcTextPerCharExtents( XFontSet , const wchar_t* , int , XRectangle* , XRectangle* , int , int* , XRectangle* , XRectangle* ); extern int Xutf8TextPerCharExtents( XFontSet , const char* , int , XRectangle* , XRectangle* , int , int* , XRectangle* , XRectangle* ); extern void XmbDrawText( Display* , Drawable , GC , int , int , XmbTextItem* , int ); extern void XwcDrawText( Display* , Drawable , GC , int , int , XwcTextItem* , int ); extern void Xutf8DrawText( Display* , Drawable , GC , int , int , XmbTextItem* , int ); extern void XmbDrawString( Display* , Drawable , XFontSet , GC , int , int , const char* , int ); extern void XwcDrawString( Display* , Drawable , XFontSet , GC , int , int , const wchar_t* , int ); extern void Xutf8DrawString( Display* , Drawable , XFontSet , GC , int , int , const char* , int ); extern void XmbDrawImageString( Display* , Drawable , XFontSet , GC , int , int , const char* , int ); extern void XwcDrawImageString( Display* , Drawable , XFontSet , GC , int , int , const wchar_t* , int ); extern void Xutf8DrawImageString( Display* , Drawable , XFontSet , GC , int , int , const char* , int ); extern XIM XOpenIM( Display* , struct _XrmHashBucketRec* , char* , char* ); extern int XCloseIM( XIM ); extern char *XGetIMValues( XIM , ... ) __attribute__ ((__sentinel__(0))); extern char *XSetIMValues( XIM , ... ) __attribute__ ((__sentinel__(0))); extern Display *XDisplayOfIM( XIM ); extern char *XLocaleOfIM( XIM ); extern XIC XCreateIC( XIM , ... ) __attribute__ ((__sentinel__(0))); extern void XDestroyIC( XIC ); extern void XSetICFocus( XIC ); extern void XUnsetICFocus( XIC ); extern wchar_t *XwcResetIC( XIC ); extern char *XmbResetIC( XIC ); extern char *Xutf8ResetIC( XIC ); extern char *XSetICValues( XIC , ... ) __attribute__ ((__sentinel__(0))); extern char *XGetICValues( XIC , ... ) __attribute__ ((__sentinel__(0))); extern XIM XIMOfIC( XIC ); extern int XFilterEvent( XEvent* , Window ); extern int XmbLookupString( XIC , XKeyPressedEvent* , char* , int , KeySym* , int* ); extern int XwcLookupString( XIC , XKeyPressedEvent* , wchar_t* , int , KeySym* , int* ); extern int Xutf8LookupString( XIC , XKeyPressedEvent* , char* , int , KeySym* , int* ); extern XVaNestedList XVaCreateNestedList( int , ... ) __attribute__ ((__sentinel__(0))); extern int XRegisterIMInstantiateCallback( Display* , struct _XrmHashBucketRec* , char* , char* , XIDProc , XPointer ); extern int XUnregisterIMInstantiateCallback( Display* , struct _XrmHashBucketRec* , char* , char* , XIDProc , XPointer ); typedef void (*XConnectionWatchProc)( Display* , XPointer , int , int , XPointer* ); extern int XInternalConnectionNumbers( Display* , int** , int* ); extern void XProcessInternalConnection( Display* , int ); extern int XAddConnectionWatch( Display* , XConnectionWatchProc , XPointer ); extern void XRemoveConnectionWatch( Display* , XConnectionWatchProc , XPointer ); extern void XSetAuthorization( char * , int , char * , int ); extern int _Xmbtowc( wchar_t * , char * , int ); extern int _Xwctomb( char * , wchar_t ); extern int XGetEventData( Display* , XGenericEventCookie* ); extern void XFreeEventData( Display* , XGenericEventCookie* ); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['X11/Xlib.h'] in ['/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.X(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.X(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.PARTY(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.PARTY(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Numpy(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Numpy(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.petsc4py(/global/home/thl/petsc/config/BuildSystem/config/packages/petsc4py.py:121) TESTING: alternateConfigureLibrary from config.packages.petsc4py(config/BuildSystem/config/packages/petsc4py.py:121) Defined make rule "petsc4py-build" with dependencies "" and code [] Defined make rule "petsc4py-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.mpi4py(/global/home/thl/petsc/config/BuildSystem/config/packages/mpi4py.py:71) TESTING: alternateConfigureLibrary from config.packages.mpi4py(config/BuildSystem/config/packages/mpi4py.py:71) Defined make rule "mpi4py-build" with dependencies "" and code [] Defined make rule "mpi4py-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.Matlab(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Matlab(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.MatlabEngine(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.MatlabEngine(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Mathematica(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Mathematica(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.szlib(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.szlib(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.zlib(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.zlib(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.zlib(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.zlib(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional zlib Looking for ZLIB at git.zlib, hg.zlib or a directory starting with ['zlib'] Found a copy of ZLIB in zlib-1.2.11 Pushing language C Popping language C Do not need to rebuild ZLIB Checking for library in Download ZLIB: ['/home/thl/petsc/fast_double/lib/libz.a'] Contents: ['include', 'lib', 'bin', 'externalpackages', 'share', 'initial_cache_file.cmake', 'CMakeFiles', 'cmake_install.cmake', 'CMakeCache.txt', 'Makefile'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [compress uncompress] in library ['/home/thl/petsc/fast_double/lib/libz.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char compress(); static void _check_compress() { compress(); } char uncompress(); static void _check_uncompress() { uncompress(); } int main() { _check_compress(); _check_uncompress();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBZ" to "1" Popping language C Checking for headers Download ZLIB: ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['zlib.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.headers -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/home/thl/petsc/fast_double/include/zlib.h" 1 # 34 "/home/thl/petsc/fast_double/include/zlib.h" # 1 "/home/thl/petsc/fast_double/include/zconf.h" 1 # 247 "/home/thl/petsc/fast_double/include/zconf.h" # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 248 "/home/thl/petsc/fast_double/include/zconf.h" 2 typedef size_t z_size_t; # 391 "/home/thl/petsc/fast_double/include/zconf.h" typedef unsigned char Byte; typedef unsigned int uInt; typedef unsigned long uLong; typedef Byte Bytef; typedef char charf; typedef int intf; typedef uInt uIntf; typedef uLong uLongf; typedef void const *voidpc; typedef void *voidpf; typedef void *voidp; # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 34 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 1 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 168 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/usr/include/limits.h" 1 3 4 # 27 "/usr/include/limits.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 28 "/usr/include/limits.h" 2 3 4 # 145 "/usr/include/limits.h" 3 4 # 1 "/usr/include/bits/posix1_lim.h" 1 3 4 # 157 "/usr/include/bits/posix1_lim.h" 3 4 # 1 "/usr/include/bits/local_lim.h" 1 3 4 # 39 "/usr/include/bits/local_lim.h" 3 4 # 1 "/usr/include/linux/limits.h" 1 3 4 # 40 "/usr/include/bits/local_lim.h" 2 3 4 # 158 "/usr/include/bits/posix1_lim.h" 2 3 4 # 146 "/usr/include/limits.h" 2 3 4 # 1 "/usr/include/bits/posix2_lim.h" 1 3 4 # 150 "/usr/include/limits.h" 2 3 4 # 169 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 8 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 2 3 4 # 35 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 419 "/home/thl/petsc/fast_double/include/zconf.h" 2 # 429 "/home/thl/petsc/fast_double/include/zconf.h" typedef unsigned z_crc_t; # 444 "/home/thl/petsc/fast_double/include/zconf.h" # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 445 "/home/thl/petsc/fast_double/include/zconf.h" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 1 3 4 # 40 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 3 4 typedef __builtin_va_list __gnuc_va_list; # 98 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 3 4 typedef __gnuc_va_list va_list; # 451 "/home/thl/petsc/fast_double/include/zconf.h" 2 # 475 "/home/thl/petsc/fast_double/include/zconf.h" # 1 "/usr/include/unistd.h" 1 3 4 # 28 "/usr/include/unistd.h" 3 4 # 203 "/usr/include/unistd.h" 3 4 # 1 "/usr/include/bits/posix_opt.h" 1 3 4 # 204 "/usr/include/unistd.h" 2 3 4 # 1 "/usr/include/bits/environments.h" 1 3 4 # 23 "/usr/include/bits/environments.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/environments.h" 2 3 4 # 208 "/usr/include/unistd.h" 2 3 4 # 227 "/usr/include/unistd.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 228 "/usr/include/unistd.h" 2 3 4 # 256 "/usr/include/unistd.h" 3 4 typedef __useconds_t useconds_t; # 268 "/usr/include/unistd.h" 3 4 typedef __intptr_t intptr_t; typedef __socklen_t socklen_t; # 288 "/usr/include/unistd.h" 3 4 extern int access (__const char *__name, int __type) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 305 "/usr/include/unistd.h" 3 4 extern int faccessat (int __fd, __const char *__file, int __type, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; # 331 "/usr/include/unistd.h" 3 4 extern __off_t lseek (int __fd, __off_t __offset, int __whence) __attribute__ ((__nothrow__)); # 350 "/usr/include/unistd.h" 3 4 extern int close (int __fd); extern ssize_t read (int __fd, void *__buf, size_t __nbytes) ; extern ssize_t write (int __fd, __const void *__buf, size_t __n) ; # 373 "/usr/include/unistd.h" 3 4 extern ssize_t pread (int __fd, void *__buf, size_t __nbytes, __off_t __offset) ; extern ssize_t pwrite (int __fd, __const void *__buf, size_t __n, __off_t __offset) ; # 414 "/usr/include/unistd.h" 3 4 extern int pipe (int __pipedes[2]) __attribute__ ((__nothrow__)) ; # 429 "/usr/include/unistd.h" 3 4 extern unsigned int alarm (unsigned int __seconds) __attribute__ ((__nothrow__)); # 441 "/usr/include/unistd.h" 3 4 extern unsigned int sleep (unsigned int __seconds); extern __useconds_t ualarm (__useconds_t __value, __useconds_t __interval) __attribute__ ((__nothrow__)); extern int usleep (__useconds_t __useconds); # 466 "/usr/include/unistd.h" 3 4 extern int pause (void); extern int chown (__const char *__file, __uid_t __owner, __gid_t __group) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int fchown (int __fd, __uid_t __owner, __gid_t __group) __attribute__ ((__nothrow__)) ; extern int lchown (__const char *__file, __uid_t __owner, __gid_t __group) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int fchownat (int __fd, __const char *__file, __uid_t __owner, __gid_t __group, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; extern int chdir (__const char *__path) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int fchdir (int __fd) __attribute__ ((__nothrow__)) ; # 508 "/usr/include/unistd.h" 3 4 extern char *getcwd (char *__buf, size_t __size) __attribute__ ((__nothrow__)) ; # 522 "/usr/include/unistd.h" 3 4 extern char *getwd (char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) __attribute__ ((__deprecated__)) ; extern int dup (int __fd) __attribute__ ((__nothrow__)) ; extern int dup2 (int __fd, int __fd2) __attribute__ ((__nothrow__)); # 540 "/usr/include/unistd.h" 3 4 extern char **__environ; extern int execve (__const char *__path, char *__const __argv[], char *__const __envp[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int fexecve (int __fd, char *__const __argv[], char *__const __envp[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int execv (__const char *__path, char *__const __argv[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execle (__const char *__path, __const char *__arg, ...) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execl (__const char *__path, __const char *__arg, ...) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execvp (__const char *__file, char *__const __argv[]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int execlp (__const char *__file, __const char *__arg, ...) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); # 595 "/usr/include/unistd.h" 3 4 extern int nice (int __inc) __attribute__ ((__nothrow__)) ; extern void _exit (int __status) __attribute__ ((__noreturn__)); # 1 "/usr/include/bits/confname.h" 1 3 4 # 26 "/usr/include/bits/confname.h" 3 4 enum { _PC_LINK_MAX, _PC_MAX_CANON, _PC_MAX_INPUT, _PC_NAME_MAX, _PC_PATH_MAX, _PC_PIPE_BUF, _PC_CHOWN_RESTRICTED, _PC_NO_TRUNC, _PC_VDISABLE, _PC_SYNC_IO, _PC_ASYNC_IO, _PC_PRIO_IO, _PC_SOCK_MAXBUF, _PC_FILESIZEBITS, _PC_REC_INCR_XFER_SIZE, _PC_REC_MAX_XFER_SIZE, _PC_REC_MIN_XFER_SIZE, _PC_REC_XFER_ALIGN, _PC_ALLOC_SIZE_MIN, _PC_SYMLINK_MAX, _PC_2_SYMLINKS }; enum { _SC_ARG_MAX, _SC_CHILD_MAX, _SC_CLK_TCK, _SC_NGROUPS_MAX, _SC_OPEN_MAX, _SC_STREAM_MAX, _SC_TZNAME_MAX, _SC_JOB_CONTROL, _SC_SAVED_IDS, _SC_REALTIME_SIGNALS, _SC_PRIORITY_SCHEDULING, _SC_TIMERS, _SC_ASYNCHRONOUS_IO, _SC_PRIORITIZED_IO, _SC_SYNCHRONIZED_IO, _SC_FSYNC, _SC_MAPPED_FILES, _SC_MEMLOCK, _SC_MEMLOCK_RANGE, _SC_MEMORY_PROTECTION, _SC_MESSAGE_PASSING, _SC_SEMAPHORES, _SC_SHARED_MEMORY_OBJECTS, _SC_AIO_LISTIO_MAX, _SC_AIO_MAX, _SC_AIO_PRIO_DELTA_MAX, _SC_DELAYTIMER_MAX, _SC_MQ_OPEN_MAX, _SC_MQ_PRIO_MAX, _SC_VERSION, _SC_PAGESIZE, _SC_RTSIG_MAX, _SC_SEM_NSEMS_MAX, _SC_SEM_VALUE_MAX, _SC_SIGQUEUE_MAX, _SC_TIMER_MAX, _SC_BC_BASE_MAX, _SC_BC_DIM_MAX, _SC_BC_SCALE_MAX, _SC_BC_STRING_MAX, _SC_COLL_WEIGHTS_MAX, _SC_EQUIV_CLASS_MAX, _SC_EXPR_NEST_MAX, _SC_LINE_MAX, _SC_RE_DUP_MAX, _SC_CHARCLASS_NAME_MAX, _SC_2_VERSION, _SC_2_C_BIND, _SC_2_C_DEV, _SC_2_FORT_DEV, _SC_2_FORT_RUN, _SC_2_SW_DEV, _SC_2_LOCALEDEF, _SC_PII, _SC_PII_XTI, _SC_PII_SOCKET, _SC_PII_INTERNET, _SC_PII_OSI, _SC_POLL, _SC_SELECT, _SC_UIO_MAXIOV, _SC_IOV_MAX = _SC_UIO_MAXIOV, _SC_PII_INTERNET_STREAM, _SC_PII_INTERNET_DGRAM, _SC_PII_OSI_COTS, _SC_PII_OSI_CLTS, _SC_PII_OSI_M, _SC_T_IOV_MAX, _SC_THREADS, _SC_THREAD_SAFE_FUNCTIONS, _SC_GETGR_R_SIZE_MAX, _SC_GETPW_R_SIZE_MAX, _SC_LOGIN_NAME_MAX, _SC_TTY_NAME_MAX, _SC_THREAD_DESTRUCTOR_ITERATIONS, _SC_THREAD_KEYS_MAX, _SC_THREAD_STACK_MIN, _SC_THREAD_THREADS_MAX, _SC_THREAD_ATTR_STACKADDR, _SC_THREAD_ATTR_STACKSIZE, _SC_THREAD_PRIORITY_SCHEDULING, _SC_THREAD_PRIO_INHERIT, _SC_THREAD_PRIO_PROTECT, _SC_THREAD_PROCESS_SHARED, _SC_NPROCESSORS_CONF, _SC_NPROCESSORS_ONLN, _SC_PHYS_PAGES, _SC_AVPHYS_PAGES, _SC_ATEXIT_MAX, _SC_PASS_MAX, _SC_XOPEN_VERSION, _SC_XOPEN_XCU_VERSION, _SC_XOPEN_UNIX, _SC_XOPEN_CRYPT, _SC_XOPEN_ENH_I18N, _SC_XOPEN_SHM, _SC_2_CHAR_TERM, _SC_2_C_VERSION, _SC_2_UPE, _SC_XOPEN_XPG2, _SC_XOPEN_XPG3, _SC_XOPEN_XPG4, _SC_CHAR_BIT, _SC_CHAR_MAX, _SC_CHAR_MIN, _SC_INT_MAX, _SC_INT_MIN, _SC_LONG_BIT, _SC_WORD_BIT, _SC_MB_LEN_MAX, _SC_NZERO, _SC_SSIZE_MAX, _SC_SCHAR_MAX, _SC_SCHAR_MIN, _SC_SHRT_MAX, _SC_SHRT_MIN, _SC_UCHAR_MAX, _SC_UINT_MAX, _SC_ULONG_MAX, _SC_USHRT_MAX, _SC_NL_ARGMAX, _SC_NL_LANGMAX, _SC_NL_MSGMAX, _SC_NL_NMAX, _SC_NL_SETMAX, _SC_NL_TEXTMAX, _SC_XBS5_ILP32_OFF32, _SC_XBS5_ILP32_OFFBIG, _SC_XBS5_LP64_OFF64, _SC_XBS5_LPBIG_OFFBIG, _SC_XOPEN_LEGACY, _SC_XOPEN_REALTIME, _SC_XOPEN_REALTIME_THREADS, _SC_ADVISORY_INFO, _SC_BARRIERS, _SC_BASE, _SC_C_LANG_SUPPORT, _SC_C_LANG_SUPPORT_R, _SC_CLOCK_SELECTION, _SC_CPUTIME, _SC_THREAD_CPUTIME, _SC_DEVICE_IO, _SC_DEVICE_SPECIFIC, _SC_DEVICE_SPECIFIC_R, _SC_FD_MGMT, _SC_FIFO, _SC_PIPE, _SC_FILE_ATTRIBUTES, _SC_FILE_LOCKING, _SC_FILE_SYSTEM, _SC_MONOTONIC_CLOCK, _SC_MULTI_PROCESS, _SC_SINGLE_PROCESS, _SC_NETWORKING, _SC_READER_WRITER_LOCKS, _SC_SPIN_LOCKS, _SC_REGEXP, _SC_REGEX_VERSION, _SC_SHELL, _SC_SIGNALS, _SC_SPAWN, _SC_SPORADIC_SERVER, _SC_THREAD_SPORADIC_SERVER, _SC_SYSTEM_DATABASE, _SC_SYSTEM_DATABASE_R, _SC_TIMEOUTS, _SC_TYPED_MEMORY_OBJECTS, _SC_USER_GROUPS, _SC_USER_GROUPS_R, _SC_2_PBS, _SC_2_PBS_ACCOUNTING, _SC_2_PBS_LOCATE, _SC_2_PBS_MESSAGE, _SC_2_PBS_TRACK, _SC_SYMLOOP_MAX, _SC_STREAMS, _SC_2_PBS_CHECKPOINT, _SC_V6_ILP32_OFF32, _SC_V6_ILP32_OFFBIG, _SC_V6_LP64_OFF64, _SC_V6_LPBIG_OFFBIG, _SC_HOST_NAME_MAX, _SC_TRACE, _SC_TRACE_EVENT_FILTER, _SC_TRACE_INHERIT, _SC_TRACE_LOG, _SC_LEVEL1_ICACHE_SIZE, _SC_LEVEL1_ICACHE_ASSOC, _SC_LEVEL1_ICACHE_LINESIZE, _SC_LEVEL1_DCACHE_SIZE, _SC_LEVEL1_DCACHE_ASSOC, _SC_LEVEL1_DCACHE_LINESIZE, _SC_LEVEL2_CACHE_SIZE, _SC_LEVEL2_CACHE_ASSOC, _SC_LEVEL2_CACHE_LINESIZE, _SC_LEVEL3_CACHE_SIZE, _SC_LEVEL3_CACHE_ASSOC, _SC_LEVEL3_CACHE_LINESIZE, _SC_LEVEL4_CACHE_SIZE, _SC_LEVEL4_CACHE_ASSOC, _SC_LEVEL4_CACHE_LINESIZE, _SC_IPV6 = _SC_LEVEL1_ICACHE_SIZE + 50, _SC_RAW_SOCKETS, _SC_V7_ILP32_OFF32, _SC_V7_ILP32_OFFBIG, _SC_V7_LP64_OFF64, _SC_V7_LPBIG_OFFBIG, _SC_SS_REPL_MAX, _SC_TRACE_EVENT_NAME_MAX, _SC_TRACE_NAME_MAX, _SC_TRACE_SYS_MAX, _SC_TRACE_USER_EVENT_MAX, _SC_XOPEN_STREAMS, _SC_THREAD_ROBUST_PRIO_INHERIT, _SC_THREAD_ROBUST_PRIO_PROTECT }; enum { _CS_PATH, _CS_V6_WIDTH_RESTRICTED_ENVS, _CS_GNU_LIBC_VERSION, _CS_GNU_LIBPTHREAD_VERSION, _CS_V5_WIDTH_RESTRICTED_ENVS, _CS_V7_WIDTH_RESTRICTED_ENVS, _CS_LFS_CFLAGS = 1000, _CS_LFS_LDFLAGS, _CS_LFS_LIBS, _CS_LFS_LINTFLAGS, _CS_LFS64_CFLAGS, _CS_LFS64_LDFLAGS, _CS_LFS64_LIBS, _CS_LFS64_LINTFLAGS, _CS_XBS5_ILP32_OFF32_CFLAGS = 1100, _CS_XBS5_ILP32_OFF32_LDFLAGS, _CS_XBS5_ILP32_OFF32_LIBS, _CS_XBS5_ILP32_OFF32_LINTFLAGS, _CS_XBS5_ILP32_OFFBIG_CFLAGS, _CS_XBS5_ILP32_OFFBIG_LDFLAGS, _CS_XBS5_ILP32_OFFBIG_LIBS, _CS_XBS5_ILP32_OFFBIG_LINTFLAGS, _CS_XBS5_LP64_OFF64_CFLAGS, _CS_XBS5_LP64_OFF64_LDFLAGS, _CS_XBS5_LP64_OFF64_LIBS, _CS_XBS5_LP64_OFF64_LINTFLAGS, _CS_XBS5_LPBIG_OFFBIG_CFLAGS, _CS_XBS5_LPBIG_OFFBIG_LDFLAGS, _CS_XBS5_LPBIG_OFFBIG_LIBS, _CS_XBS5_LPBIG_OFFBIG_LINTFLAGS, _CS_POSIX_V6_ILP32_OFF32_CFLAGS, _CS_POSIX_V6_ILP32_OFF32_LDFLAGS, _CS_POSIX_V6_ILP32_OFF32_LIBS, _CS_POSIX_V6_ILP32_OFF32_LINTFLAGS, _CS_POSIX_V6_ILP32_OFFBIG_CFLAGS, _CS_POSIX_V6_ILP32_OFFBIG_LDFLAGS, _CS_POSIX_V6_ILP32_OFFBIG_LIBS, _CS_POSIX_V6_ILP32_OFFBIG_LINTFLAGS, _CS_POSIX_V6_LP64_OFF64_CFLAGS, _CS_POSIX_V6_LP64_OFF64_LDFLAGS, _CS_POSIX_V6_LP64_OFF64_LIBS, _CS_POSIX_V6_LP64_OFF64_LINTFLAGS, _CS_POSIX_V6_LPBIG_OFFBIG_CFLAGS, _CS_POSIX_V6_LPBIG_OFFBIG_LDFLAGS, _CS_POSIX_V6_LPBIG_OFFBIG_LIBS, _CS_POSIX_V6_LPBIG_OFFBIG_LINTFLAGS, _CS_POSIX_V7_ILP32_OFF32_CFLAGS, _CS_POSIX_V7_ILP32_OFF32_LDFLAGS, _CS_POSIX_V7_ILP32_OFF32_LIBS, _CS_POSIX_V7_ILP32_OFF32_LINTFLAGS, _CS_POSIX_V7_ILP32_OFFBIG_CFLAGS, _CS_POSIX_V7_ILP32_OFFBIG_LDFLAGS, _CS_POSIX_V7_ILP32_OFFBIG_LIBS, _CS_POSIX_V7_ILP32_OFFBIG_LINTFLAGS, _CS_POSIX_V7_LP64_OFF64_CFLAGS, _CS_POSIX_V7_LP64_OFF64_LDFLAGS, _CS_POSIX_V7_LP64_OFF64_LIBS, _CS_POSIX_V7_LP64_OFF64_LINTFLAGS, _CS_POSIX_V7_LPBIG_OFFBIG_CFLAGS, _CS_POSIX_V7_LPBIG_OFFBIG_LDFLAGS, _CS_POSIX_V7_LPBIG_OFFBIG_LIBS, _CS_POSIX_V7_LPBIG_OFFBIG_LINTFLAGS, _CS_V6_ENV, _CS_V7_ENV }; # 607 "/usr/include/unistd.h" 2 3 4 extern long int pathconf (__const char *__path, int __name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int fpathconf (int __fd, int __name) __attribute__ ((__nothrow__)); extern long int sysconf (int __name) __attribute__ ((__nothrow__)); extern size_t confstr (int __name, char *__buf, size_t __len) __attribute__ ((__nothrow__)); extern __pid_t getpid (void) __attribute__ ((__nothrow__)); extern __pid_t getppid (void) __attribute__ ((__nothrow__)); extern __pid_t getpgrp (void) __attribute__ ((__nothrow__)); # 643 "/usr/include/unistd.h" 3 4 extern __pid_t __getpgid (__pid_t __pid) __attribute__ ((__nothrow__)); extern __pid_t getpgid (__pid_t __pid) __attribute__ ((__nothrow__)); extern int setpgid (__pid_t __pid, __pid_t __pgid) __attribute__ ((__nothrow__)); # 669 "/usr/include/unistd.h" 3 4 extern int setpgrp (void) __attribute__ ((__nothrow__)); # 686 "/usr/include/unistd.h" 3 4 extern __pid_t setsid (void) __attribute__ ((__nothrow__)); extern __pid_t getsid (__pid_t __pid) __attribute__ ((__nothrow__)); extern __uid_t getuid (void) __attribute__ ((__nothrow__)); extern __uid_t geteuid (void) __attribute__ ((__nothrow__)); extern __gid_t getgid (void) __attribute__ ((__nothrow__)); extern __gid_t getegid (void) __attribute__ ((__nothrow__)); extern int getgroups (int __size, __gid_t __list[]) __attribute__ ((__nothrow__)) ; # 719 "/usr/include/unistd.h" 3 4 extern int setuid (__uid_t __uid) __attribute__ ((__nothrow__)); extern int setreuid (__uid_t __ruid, __uid_t __euid) __attribute__ ((__nothrow__)); extern int seteuid (__uid_t __uid) __attribute__ ((__nothrow__)); extern int setgid (__gid_t __gid) __attribute__ ((__nothrow__)); extern int setregid (__gid_t __rgid, __gid_t __egid) __attribute__ ((__nothrow__)); extern int setegid (__gid_t __gid) __attribute__ ((__nothrow__)); # 775 "/usr/include/unistd.h" 3 4 extern __pid_t fork (void) __attribute__ ((__nothrow__)); extern __pid_t vfork (void) __attribute__ ((__nothrow__)); extern char *ttyname (int __fd) __attribute__ ((__nothrow__)); extern int ttyname_r (int __fd, char *__buf, size_t __buflen) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))) ; extern int isatty (int __fd) __attribute__ ((__nothrow__)); extern int ttyslot (void) __attribute__ ((__nothrow__)); extern int link (__const char *__from, __const char *__to) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) ; extern int linkat (int __fromfd, __const char *__from, int __tofd, __const char *__to, int __flags) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))) ; extern int symlink (__const char *__from, __const char *__to) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) ; extern ssize_t readlink (__const char *__restrict __path, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))) ; extern int symlinkat (__const char *__from, int __tofd, __const char *__to) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 3))) ; extern ssize_t readlinkat (int __fd, __const char *__restrict __path, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))) ; extern int unlink (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int unlinkat (int __fd, __const char *__name, int __flag) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int rmdir (__const char *__path) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern __pid_t tcgetpgrp (int __fd) __attribute__ ((__nothrow__)); extern int tcsetpgrp (int __fd, __pid_t __pgrp_id) __attribute__ ((__nothrow__)); extern char *getlogin (void); extern int getlogin_r (char *__name, size_t __name_len) __attribute__ ((__nonnull__ (1))); extern int setlogin (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 890 "/usr/include/unistd.h" 3 4 # 1 "/usr/include/getopt.h" 1 3 4 # 59 "/usr/include/getopt.h" 3 4 extern char *optarg; # 73 "/usr/include/getopt.h" 3 4 extern int optind; extern int opterr; extern int optopt; # 152 "/usr/include/getopt.h" 3 4 extern int getopt (int ___argc, char *const *___argv, const char *__shortopts) __attribute__ ((__nothrow__)); # 891 "/usr/include/unistd.h" 2 3 4 extern int gethostname (char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int sethostname (__const char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int sethostid (long int __id) __attribute__ ((__nothrow__)) ; extern int getdomainname (char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int setdomainname (__const char *__name, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int vhangup (void) __attribute__ ((__nothrow__)); extern int revoke (__const char *__file) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int profil (unsigned short int *__sample_buffer, size_t __size, size_t __offset, unsigned int __scale) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int acct (__const char *__name) __attribute__ ((__nothrow__)); extern char *getusershell (void) __attribute__ ((__nothrow__)); extern void endusershell (void) __attribute__ ((__nothrow__)); extern void setusershell (void) __attribute__ ((__nothrow__)); extern int daemon (int __nochdir, int __noclose) __attribute__ ((__nothrow__)) ; extern int chroot (__const char *__path) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern char *getpass (__const char *__prompt) __attribute__ ((__nonnull__ (1))); # 976 "/usr/include/unistd.h" 3 4 extern int fsync (int __fd); extern long int gethostid (void); extern void sync (void) __attribute__ ((__nothrow__)); extern int getpagesize (void) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern int getdtablesize (void) __attribute__ ((__nothrow__)); # 1007 "/usr/include/unistd.h" 3 4 extern int truncate (__const char *__file, __off_t __length) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 1026 "/usr/include/unistd.h" 3 4 extern int ftruncate (int __fd, __off_t __length) __attribute__ ((__nothrow__)) ; # 1047 "/usr/include/unistd.h" 3 4 extern int brk (void *__addr) __attribute__ ((__nothrow__)) ; extern void *sbrk (intptr_t __delta) __attribute__ ((__nothrow__)); # 1068 "/usr/include/unistd.h" 3 4 extern long int syscall (long int __sysno, ...) __attribute__ ((__nothrow__)); # 1091 "/usr/include/unistd.h" 3 4 extern int lockf (int __fd, int __cmd, __off_t __len) ; # 1122 "/usr/include/unistd.h" 3 4 extern int fdatasync (int __fildes); # 1151 "/usr/include/unistd.h" 3 4 extern char *ctermid (char *__s) __attribute__ ((__nothrow__)); # 1160 "/usr/include/unistd.h" 3 4 # 476 "/home/thl/petsc/fast_double/include/zconf.h" 2 # 35 "/home/thl/petsc/fast_double/include/zlib.h" 2 # 81 "/home/thl/petsc/fast_double/include/zlib.h" typedef voidpf (*alloc_func) (voidpf opaque, uInt items, uInt size); typedef void (*free_func) (voidpf opaque, voidpf address); struct internal_state; typedef struct z_stream_s { Bytef *next_in; uInt avail_in; uLong total_in; Bytef *next_out; uInt avail_out; uLong total_out; char *msg; struct internal_state *state; alloc_func zalloc; free_func zfree; voidpf opaque; int data_type; uLong adler; uLong reserved; } z_stream; typedef z_stream *z_streamp; typedef struct gz_header_s { int text; uLong time; int xflags; int os; Bytef *extra; uInt extra_len; uInt extra_max; Bytef *name; uInt name_max; Bytef *comment; uInt comm_max; int hcrc; int done; } gz_header; typedef gz_header *gz_headerp; # 220 "/home/thl/petsc/fast_double/include/zlib.h" extern const char * zlibVersion (void); # 250 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflate (z_streamp strm, int flush); # 363 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateEnd (z_streamp strm); # 400 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflate (z_streamp strm, int flush); # 520 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateEnd (z_streamp strm); # 611 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateSetDictionary (z_streamp strm, const Bytef *dictionary, uInt dictLength) ; # 655 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateGetDictionary (z_streamp strm, Bytef *dictionary, uInt *dictLength) ; # 677 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateCopy (z_streamp dest, z_streamp source) ; # 695 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateReset (z_streamp strm); # 706 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateParams (z_streamp strm, int level, int strategy) ; # 743 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateTune (z_streamp strm, int good_length, int max_lazy, int nice_length, int max_chain) ; # 760 "/home/thl/petsc/fast_double/include/zlib.h" extern uLong deflateBound (z_streamp strm, uLong sourceLen) ; # 775 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflatePending (z_streamp strm, unsigned *pending, int *bits) ; # 790 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflatePrime (z_streamp strm, int bits, int value) ; # 807 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateSetHeader (z_streamp strm, gz_headerp head) ; # 884 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateSetDictionary (z_streamp strm, const Bytef *dictionary, uInt dictLength) ; # 907 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateGetDictionary (z_streamp strm, Bytef *dictionary, uInt *dictLength) ; # 922 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateSync (z_streamp strm); # 941 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateCopy (z_streamp dest, z_streamp source) ; # 957 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateReset (z_streamp strm); # 967 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateReset2 (z_streamp strm, int windowBits) ; # 981 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflatePrime (z_streamp strm, int bits, int value) ; # 1002 "/home/thl/petsc/fast_double/include/zlib.h" extern long inflateMark (z_streamp strm); # 1030 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateGetHeader (z_streamp strm, gz_headerp head) ; # 1092 "/home/thl/petsc/fast_double/include/zlib.h" typedef unsigned (*in_func) (void *, unsigned char * *) ; typedef int (*out_func) (void *, unsigned char *, unsigned); extern int inflateBack (z_streamp strm, in_func in, void *in_desc, out_func out, void *out_desc) ; # 1166 "/home/thl/petsc/fast_double/include/zlib.h" extern int inflateBackEnd (z_streamp strm); extern uLong zlibCompileFlags (void); # 1227 "/home/thl/petsc/fast_double/include/zlib.h" extern int compress (Bytef *dest, uLongf *destLen, const Bytef *source, uLong sourceLen) ; # 1242 "/home/thl/petsc/fast_double/include/zlib.h" extern int compress2 (Bytef *dest, uLongf *destLen, const Bytef *source, uLong sourceLen, int level) ; # 1258 "/home/thl/petsc/fast_double/include/zlib.h" extern uLong compressBound (uLong sourceLen); extern int uncompress (Bytef *dest, uLongf *destLen, const Bytef *source, uLong sourceLen) ; # 1283 "/home/thl/petsc/fast_double/include/zlib.h" extern int uncompress2 (Bytef *dest, uLongf *destLen, const Bytef *source, uLong *sourceLen) ; # 1300 "/home/thl/petsc/fast_double/include/zlib.h" typedef struct gzFile_s *gzFile; # 1340 "/home/thl/petsc/fast_double/include/zlib.h" extern gzFile gzdopen (int fd, const char *mode); # 1363 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzbuffer (gzFile file, unsigned size); # 1379 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzsetparams (gzFile file, int level, int strategy); # 1390 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzread (gzFile file, voidp buf, unsigned len); # 1420 "/home/thl/petsc/fast_double/include/zlib.h" extern z_size_t gzfread (voidp buf, z_size_t size, z_size_t nitems, gzFile file) ; # 1446 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzwrite (gzFile file, voidpc buf, unsigned len) ; extern z_size_t gzfwrite (voidpc buf, z_size_t size, z_size_t nitems, gzFile file) ; # 1468 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzprintf (gzFile file, const char *format, ...); # 1483 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzputs (gzFile file, const char *s); extern char * gzgets (gzFile file, char *buf, int len); # 1504 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzputc (gzFile file, int c); extern int gzgetc (gzFile file); # 1519 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzungetc (int c, gzFile file); # 1531 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzflush (gzFile file, int flush); # 1566 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzrewind (gzFile file); # 1594 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzeof (gzFile file); # 1609 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzdirect (gzFile file); # 1630 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzclose (gzFile file); # 1643 "/home/thl/petsc/fast_double/include/zlib.h" extern int gzclose_r (gzFile file); extern int gzclose_w (gzFile file); # 1655 "/home/thl/petsc/fast_double/include/zlib.h" extern const char * gzerror (gzFile file, int *errnum); # 1671 "/home/thl/petsc/fast_double/include/zlib.h" extern void gzclearerr (gzFile file); # 1688 "/home/thl/petsc/fast_double/include/zlib.h" extern uLong adler32 (uLong adler, const Bytef *buf, uInt len); # 1707 "/home/thl/petsc/fast_double/include/zlib.h" extern uLong adler32_z (uLong adler, const Bytef *buf, z_size_t len) ; # 1725 "/home/thl/petsc/fast_double/include/zlib.h" extern uLong crc32 (uLong crc, const Bytef *buf, uInt len); # 1742 "/home/thl/petsc/fast_double/include/zlib.h" extern uLong crc32_z (uLong adler, const Bytef *buf, z_size_t len) ; # 1764 "/home/thl/petsc/fast_double/include/zlib.h" extern int deflateInit_ (z_streamp strm, int level, const char *version, int stream_size) ; extern int inflateInit_ (z_streamp strm, const char *version, int stream_size) ; extern int deflateInit2_ (z_streamp strm, int level, int method, int windowBits, int memLevel, int strategy, const char *version, int stream_size) ; extern int inflateInit2_ (z_streamp strm, int windowBits, const char *version, int stream_size) ; extern int inflateBackInit_ (z_streamp strm, int windowBits, unsigned char *window, const char *version, int stream_size) ; # 1817 "/home/thl/petsc/fast_double/include/zlib.h" struct gzFile_s { unsigned have; unsigned char *next; off_t pos; }; extern int gzgetc_ (gzFile file); # 1872 "/home/thl/petsc/fast_double/include/zlib.h" extern gzFile gzopen (const char *, const char *); extern off_t gzseek (gzFile, off_t, int); extern off_t gztell (gzFile); extern off_t gzoffset (gzFile); extern uLong adler32_combine (uLong, uLong, off_t); extern uLong crc32_combine (uLong, uLong, off_t); # 1888 "/home/thl/petsc/fast_double/include/zlib.h" extern const char * zError (int); extern int inflateSyncPoint (z_streamp); extern const z_crc_t * get_crc_table (void); extern int inflateUndermine (z_streamp, int); extern int inflateValidate (z_streamp, int); extern unsigned long inflateCodesUsed (z_streamp); extern int inflateResetKeep (z_streamp); extern int deflateResetKeep (z_streamp); extern int gzvprintf (gzFile file, const char *format, va_list va) ; # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['zlib.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.zlib(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.zlib(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.openmp(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.openmp(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.opencl(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.opencl(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.cuda(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.cuda(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.viennacl(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.viennacl(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.cusp(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.cusp(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST configureVecCUDA from config.utilities.veccuda(/global/home/thl/petsc/config/BuildSystem/config/utilities/veccuda.py:15) TESTING: configureVecCUDA from config.utilities.veccuda(config/BuildSystem/config/utilities/veccuda.py:15) Configure VecCUDA as fallback CUDA vector if CUSP and VIENNACL are not present ================================================================================ TEST locateCMake from config.packages.cmake(/global/home/thl/petsc/config/BuildSystem/config/packages/cmake.py:36) TESTING: locateCMake from config.packages.cmake(config/BuildSystem/config/packages/cmake.py:36) Looking for default CMake executable Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake...found Defined make macro "CMAKE" to "/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake" Looking for default CTest executable Checking for program /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ctest...found Defined make macro "CTEST" to "/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ctest" ================================================================================ TEST alternateConfigureLibrary from config.packages.googletest(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.googletest(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.eigen(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.eigen(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.unittestcpp(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.unittestcpp(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.tetgen(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.tetgen(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.tchem(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.tchem(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.saws(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.saws(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.libpng(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.libpng(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Triangle(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Triangle(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.PTScotch(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.PTScotch(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.metis(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.metis(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.metis(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.metis(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional metis Looking for METIS at git.metis, hg.metis or a directory starting with ['metis'] Could not locate an existing copy of METIS: ['git.sowing', 'fblaslapack-3.4.2', 'zlib-1.2.11'] Downloading metis =============================================================================== Trying to download git://https://bitbucket.org/petsc/pkg-metis.git for METIS =============================================================================== Executing: git clone https://bitbucket.org/petsc/pkg-metis.git /global/home/thl/petsc/fast_double/externalpackages/git.metis stdout: Initialized empty Git repository in /global/home/thl/petsc/fast_double/externalpackages/git.metis/.git/ Looking for METIS at git.metis, hg.metis or a directory starting with ['metis'] Found a copy of METIS in git.metis Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'v5.1.0-p4^{commit}'] Executing: ['git', 'rev-parse', 'v5.1.0-p4'] stdout: 0adf3ea7785d49ece1ac1ce6f1ddb5e8fa3c6e4d Executing: ['git', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] Executing: ['git', 'checkout', '-f', '0adf3ea7785d49ece1ac1ce6f1ddb5e8fa3c6e4d'] Pushing language C Popping language C Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Have to rebuild METIS, /global/home/thl/petsc/fast_double/externalpackages/git.metis/metis.petscconf != /home/thl/petsc/fast_double/lib/petsc/conf/pkg.conf.metis =============================================================================== Configuring METIS with cmake, this may take several minutes =============================================================================== Executing: cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake .. -DCMAKE_INSTALL_PREFIX=/home/thl/petsc/fast_double -DCMAKE_VERBOSE_MAKEFILE=1 -DCMAKE_C_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" -DCMAKE_AR=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar -DCMAKE_RANLIB=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib -DCMAKE_C_FLAGS:STRING="-fPIC -fstack-protector -O3" -DCMAKE_CXX_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx" -DCMAKE_CXX_FLAGS:STRING="-fstack-protector -g -O -fPIC" -DCMAKE_Fortran_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90" -DCMAKE_Fortran_FLAGS:STRING="-fPIC -ffree-line-length-0 -O3" -DBUILD_SHARED_LIBS=on -DGKLIB_PATH=../GKlib -DGKRAND=1 -DSHARED=1 -DMETIS_USE_DOUBLEPRECISION=1 -DMATH_LIB="-lm" stdout: -- The C compiler identification is GNU 4.9.3 -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Looking for execinfo.h -- Looking for execinfo.h - found -- Looking for getline -- Looking for getline - found -- Configuring done -- Generating done -- Build files have been written to: /global/home/thl/petsc/fast_double/externalpackages/git.metis/build =============================================================================== Compiling and installing METIS; this may take several minutes =============================================================================== Executing: cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build && /usr/bin/gmake -j 10 && /usr/bin/gmake install stdout: /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.metis -B/global/home/thl/petsc/fast_double/externalpackages/git.metis/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' /usr/bin/gmake -f libmetis/CMakeFiles/metis.dir/build.make libmetis/CMakeFiles/metis.dir/depend gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_depends "Unix Makefiles" /global/home/thl/petsc/fast_double/externalpackages/git.metis /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis /global/home/thl/petsc/fast_double/externalpackages/git.metis/build /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis/CMakeFiles/metis.dir/DependInfo.cmake --color= Scanning dependencies of target metis gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' /usr/bin/gmake -f libmetis/CMakeFiles/metis.dir/build.make libmetis/CMakeFiles/metis.dir/build gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' [ 4%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/b64.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/b64.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/b64.c [ 6%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/csr.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/csr.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/csr.c [ 16%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/evaluate.c.o [ 16%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/fs.c.o [ 16%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/fkvkselect.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/evaluate.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/evaluate.c cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/fkvkselect.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/fkvkselect.c cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/fs.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/fs.c [ 16%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/graph.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/graph.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/graph.c [ 16%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/gkregex.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && 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Installing: /home/thl/petsc/fast_double/lib/libmetis.so -- Installing: /home/thl/petsc/fast_double/include/gklib_defs.h -- Installing: /home/thl/petsc/fast_double/include/gklib_rename.h ********Output of running make on METIS follows ******* -- The C compiler identification is GNU 4.9.3 -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Looking for execinfo.h -- Looking for execinfo.h - found -- Looking for getline -- Looking for getline - found -- Configuring done -- Generating done -- Build files have been written to: /global/home/thl/petsc/fast_double/externalpackages/git.metis/buildCMake Warning: Manually-specified variables were not used by the project: 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-I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/__/GKlib/graph.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/graph.c [ 16%] Building C object libmetis/CMakeFiles/metis.dir/__/GKlib/gkregex.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector 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-I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/options.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/options.c [ 83%] Building C object libmetis/CMakeFiles/metis.dir/parmetis.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/parmetis.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/parmetis.c [ 85%] Building C object libmetis/CMakeFiles/metis.dir/pmetis.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/pmetis.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/pmetis.c [ 87%] Building C object libmetis/CMakeFiles/metis.dir/refine.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/refine.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/refine.c [ 88%] Building C object libmetis/CMakeFiles/metis.dir/separator.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/separator.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/separator.c [ 90%] Building C object libmetis/CMakeFiles/metis.dir/sfm.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/sfm.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/sfm.c [ 91%] Building C object libmetis/CMakeFiles/metis.dir/srefine.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/srefine.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/srefine.c [ 93%] Building C object libmetis/CMakeFiles/metis.dir/stat.c.o cd 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-I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/util.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/util.c [ 98%] Building C object libmetis/CMakeFiles/metis.dir/wspace.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/. -I/global/home/thl/petsc/fast_double/externalpackages/git.metis/build/include -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing -fPIC -Wall -pedantic -Wno-unused-variable -Wno-unknown-pragmas -DNDEBUG -DNDEBUG2 -DUSE_GKRAND -DHAVE_EXECINFO_H -DHAVE_GETLINE -O3 -fPIC -o CMakeFiles/metis.dir/wspace.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/wspace.c [100%] Linking C shared library libmetis.so cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_link_script CMakeFiles/metis.dir/link.txt --verbose=1 /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -fPIC -fPIC -fstack-protector -O3 -DLINUX -D_FILE_OFFSET_BITS=64 -std=c99 -fno-strict-aliasing 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CMakeFiles/metis.dir/ometis.c.o CMakeFiles/metis.dir/options.c.o CMakeFiles/metis.dir/parmetis.c.o CMakeFiles/metis.dir/pmetis.c.o CMakeFiles/metis.dir/refine.c.o CMakeFiles/metis.dir/separator.c.o CMakeFiles/metis.dir/sfm.c.o CMakeFiles/metis.dir/srefine.c.o CMakeFiles/metis.dir/stat.c.o CMakeFiles/metis.dir/timing.c.o CMakeFiles/metis.dir/util.c.o CMakeFiles/metis.dir/wspace.c.o -lm gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' [100%] Built target metis gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/CMakeFiles 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.metis -B/global/home/thl/petsc/fast_double/externalpackages/git.metis/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' /usr/bin/gmake -f libmetis/CMakeFiles/metis.dir/build.make libmetis/CMakeFiles/metis.dir/depend gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' cd /global/home/thl/petsc/fast_double/externalpackages/git.metis/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_depends "Unix Makefiles" /global/home/thl/petsc/fast_double/externalpackages/git.metis /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis /global/home/thl/petsc/fast_double/externalpackages/git.metis/build /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/libmetis/CMakeFiles/metis.dir/DependInfo.cmake --color= gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' /usr/bin/gmake -f libmetis/CMakeFiles/metis.dir/build.make libmetis/CMakeFiles/metis.dir/build gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' gmake[2]: Nothing to be done for `libmetis/CMakeFiles/metis.dir/build'. gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' [100%] Built target metis gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.metis/build/CMakeFiles 0 /usr/bin/gmake -f CMakeFiles/Makefile2 preinstall gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' gmake[1]: Nothing to be done for `preinstall'. gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.metis/build' Install the project... /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -P cmake_install.cmake -- Install configuration: "" -- Installing: /home/thl/petsc/fast_double/include/metis.h -- Installing: /home/thl/petsc/fast_double/include/gklib_tls.h -- Installing: /home/thl/petsc/fast_double/lib/libmetis.so -- Installing: /home/thl/petsc/fast_double/include/gklib_defs.h -- Installing: /home/thl/petsc/fast_double/include/gklib_rename.h/global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/error.c: In function ‘gk_strerror’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/error.c:183:3: warning: implicit declaration of function ‘strerror_r’ [-Wimplicit-function-declaration] strerror_r(errnum, buf, 1024); ^ In file included from /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/GKlib.h:74:0, from /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:12: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c: In function ‘gk_ipqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:19:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(gk_ipq, gk_ipq_t, gk_ikv_t, int, gk_idx_t, gk_ikvmalloc, INT_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c: In function ‘gk_i32pqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:20:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(gk_i32pq, gk_i32pq_t, gk_i32kv_t, int32_t, gk_idx_t, gk_i32kvmalloc, INT32_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c: In function ‘gk_i64pqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:21:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(gk_i64pq, gk_i64pq_t, gk_i64kv_t, int64_t, gk_idx_t, gk_i64kvmalloc, INT64_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c: In function ‘gk_fpqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:22:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(gk_fpq, gk_fpq_t, gk_fkv_t, float, gk_idx_t, gk_fkvmalloc, FLT_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c: In function ‘gk_dpqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:23:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(gk_dpq, gk_dpq_t, gk_dkv_t, double, gk_idx_t, gk_dkvmalloc, DBL_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c: In function ‘gk_idxpqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/pqueue.c:24:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(gk_idxpq, gk_idxpq_t, gk_idxkv_t, gk_idx_t, gk_idx_t, gk_idxkvmalloc, GK_IDX_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/coarsen.c: In function ‘libmetis__Match_RM’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/coarsen.c:152:33: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *maxvwgt; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/contig.c: In function ‘libmetis__EliminateComponents’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/contig.c:345:11: warning: variable ‘tpwgts’ set but not used [-Wunused-but-set-variable] real_t *tpwgts; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/contig.c: In function ‘libmetis__MoveGroupContigForCut’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/contig.c:534:34: warning: variable ‘nvtxs’ set but not used [-Wunused-but-set-variable] idx_t i, ii, iii, j, jj, k, l, nvtxs, nbnd, from, me; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/contig.c: In function ‘libmetis__MoveGroupContigForVol’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/contig.c:605:34: warning: variable ‘nvtxs’ set but not used [-Wunused-but-set-variable] idx_t i, ii, iii, j, jj, k, l, nvtxs, from, me, other, xgain; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c: In function ‘libmetis__CheckBnd’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:124:43: warning: variable ‘bndind’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:124:34: warning: variable ‘bndptr’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c: In function ‘libmetis__CheckBnd2’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:161:43: warning: variable ‘bndind’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:161:34: warning: variable ‘bndptr’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c: In function ‘libmetis__CheckNodeBnd’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:198:43: warning: variable ‘bndind’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:198:34: warning: variable ‘bndptr’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:198:17: warning: variable ‘adjncy’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:198:10: warning: variable ‘xadj’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c: In function ‘libmetis__CheckRInfo’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:235:11: warning: variable ‘nbrs’ set but not used [-Wunused-but-set-variable] cnbr_t *nbrs; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c: In function ‘libmetis__CheckNodePartitionParams’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:258:26: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *adjwgt, *vwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c: In function ‘libmetis__IsSeparable’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:312:17: warning: variable ‘adjncy’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/debug.c:311:22: warning: variable ‘other’ set but not used [-Wunused-but-set-variable] idx_t i, j, nvtxs, other; ^ In file included from /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/GKlib.h:74:0, from /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/metislib.h:17, from /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/gklib.c:12: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/gklib.c: In function ‘libmetis__ipqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/gklib.c:33:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(ipq, ipq_t, ikv_t, idx_t, idx_t, ikvmalloc, IDX_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/gklib.c: In function ‘libmetis__rpqCheckHeap’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/GKlib/gk_mkpqueue.h:386:8: warning: variable ‘heap’ set but not used [-Wunused-but-set-variable] KVT *heap;\ ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/gklib.c:34:1: note: in expansion of macro ‘GK_MKPQUEUE’ GK_MKPQUEUE(rpq, rpq_t, rkv_t, real_t, idx_t, rkvmalloc, REAL_MAX, key_gt) ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c: In function ‘libmetis__RandomBisection’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c:119:33: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c:119:24: warning: variable ‘adjncy’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c:119:10: warning: variable ‘xadj’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c: In function ‘libmetis__GrowBisection’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c:195:33: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c: In function ‘libmetis__GrowBisectionNode’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/initpart.c:438:33: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *where, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c: In function ‘libmetis__Greedy_KWayCutOptimize’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c:69:74: warning: variable ‘adwgts’ set but not used [-Wunused-but-set-variable] idx_t maxndoms, *safetos=NULL, *nads=NULL, *doms=NULL, **adids=NULL, **adwgts=NULL; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c: In function ‘libmetis__Greedy_KWayVolOptimize’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c:379:74: warning: variable ‘adwgts’ set but not used [-Wunused-but-set-variable] idx_t maxndoms, *safetos=NULL, *nads=NULL, *doms=NULL, **adids=NULL, **adwgts=NULL; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c:377:33: warning: variable ‘bndptr’ set but not used [-Wunused-but-set-variable] idx_t *where, *pwgts, *perm, *bndptr, *bndind, *minwgt, *maxwgt, *itpwgts; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c: In function ‘libmetis__Greedy_McKWayCutOptimize’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c:693:74: warning: variable ‘adwgts’ set but not used [-Wunused-but-set-variable] idx_t maxndoms, *safetos=NULL, *nads=NULL, *doms=NULL, **adids=NULL, **adwgts=NULL; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c: In function ‘libmetis__Greedy_McKWayVolOptimize’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c:1035:74: warning: variable ‘adwgts’ set but not used [-Wunused-but-set-variable] idx_t maxndoms, *safetos=NULL, *nads=NULL, *doms=NULL, **adids=NULL, **adwgts=NULL; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayfm.c:1033:33: warning: variable ‘bndptr’ set but not used [-Wunused-but-set-variable] idx_t *where, *pwgts, *perm, *bndptr, *bndind, *minwgt, *maxwgt; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayrefine.c: In function ‘libmetis__ComputeKWayVolGains’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/kwayrefine.c:565:34: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vsize, *adjncy, *adjwgt, *where, ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c: In function ‘libmetis__ComputeSubDomainGraph’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c:21:26: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c:21:17: warning: variable ‘adjncy’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c:21:10: warning: variable ‘xadj’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *adjncy, *adjwgt, *where; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c: In function ‘libmetis__MoveGroupMinConnForCut’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c:480:29: warning: variable ‘nvtxs’ set but not used [-Wunused-but-set-variable] idx_t i, ii, j, jj, k, l, nvtxs, nbnd, from, me; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c: In function ‘libmetis__MoveGroupMinConnForVol’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/minconn.c:564:29: warning: variable ‘nvtxs’ set but not used [-Wunused-but-set-variable] idx_t i, ii, j, jj, k, l, nvtxs, from, me, other, xgain, ewgt; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/ometis.c: In function ‘libmetis__MlevelNestedDissection’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/ometis.c:186:15: warning: variable ‘nvtxs’ set but not used [-Wunused-but-set-variable] idx_t i, j, nvtxs, nbnd; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/ometis.c: In function ‘libmetis__SplitGraphOrder’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/ometis.c:426:33: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *label, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/ometis.c: In function ‘libmetis__SplitGraphOrderCC’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/ometis.c:556:33: warning: variable ‘adjwgt’ set but not used [-Wunused-but-set-variable] idx_t *xadj, *vwgt, *adjncy, *adjwgt, *label, *where, *bndptr, *bndind; ^ /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/separator.c: In function ‘libmetis__ConstructMinCoverSeparator’: /global/home/thl/petsc/fast_double/externalpackages/git.metis/libmetis/separator.c:73:27: warning: variable ‘bndptr’ set but not used [-Wunused-but-set-variable] idx_t *where, *bndind, *bndptr, *vmap, *ivmap, *cover; ^ ********End of Output of running make on METIS ******* Checking for library in Download METIS: ['/home/thl/petsc/fast_double/lib/libmetis.a'] Contents: ['include', 'lib', 'bin', 'externalpackages', 'share', 'initial_cache_file.cmake', 'CMakeFiles', 'cmake_install.cmake', 'CMakeCache.txt', 'Makefile'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [METIS_PartGraphKway] in library ['/home/thl/petsc/fast_double/lib/libmetis.a'] ['libm.a'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char METIS_PartGraphKway(); static void _check_METIS_PartGraphKway() { METIS_PartGraphKway(); } int main() { _check_METIS_PartGraphKway();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBMETIS" to "1" Popping language C Checking for headers Download METIS: ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['metis.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.headers -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/home/thl/petsc/fast_double/include/metis.h" 1 # 94 "/home/thl/petsc/fast_double/include/metis.h" # 1 "/usr/include/inttypes.h" 1 3 4 # 26 "/usr/include/inttypes.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/inttypes.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 27 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 37 "/usr/include/stdint.h" 3 4 typedef signed char int8_t; typedef short int int16_t; typedef int int32_t; typedef long int int64_t; typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 29 "/usr/include/inttypes.h" 2 3 4 typedef int __gwchar_t; # 274 "/usr/include/inttypes.h" 3 4 typedef struct { long int quot; long int rem; } imaxdiv_t; # 298 "/usr/include/inttypes.h" 3 4 extern intmax_t imaxabs (intmax_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern imaxdiv_t imaxdiv (intmax_t __numer, intmax_t __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern intmax_t strtoimax (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t strtoumax (__const char *__restrict __nptr, char ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern intmax_t wcstoimax (__const __gwchar_t *__restrict __nptr, __gwchar_t **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t wcstoumax (__const __gwchar_t *__restrict __nptr, __gwchar_t ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); # 442 "/usr/include/inttypes.h" 3 4 # 95 "/home/thl/petsc/fast_double/include/metis.h" 2 # 103 "/home/thl/petsc/fast_double/include/metis.h" typedef int32_t idx_t; # 151 "/home/thl/petsc/fast_double/include/metis.h" typedef double real_t; # 199 "/home/thl/petsc/fast_double/include/metis.h" int METIS_PartGraphRecursive(idx_t *nvtxs, idx_t *ncon, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *vsize, idx_t *adjwgt, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part); int METIS_PartGraphKway(idx_t *nvtxs, idx_t *ncon, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *vsize, idx_t *adjwgt, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part); int METIS_MeshToDual(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *ncommon, idx_t *numflag, idx_t **r_xadj, idx_t **r_adjncy); int METIS_MeshToNodal(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *numflag, idx_t **r_xadj, idx_t **r_adjncy); int METIS_PartMeshNodal(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *vwgt, idx_t *vsize, idx_t *nparts, real_t *tpwgts, idx_t *options, idx_t *objval, idx_t *epart, idx_t *npart); int METIS_PartMeshDual(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *vwgt, idx_t *vsize, idx_t *ncommon, idx_t *nparts, real_t *tpwgts, idx_t *options, idx_t *objval, idx_t *epart, idx_t *npart); int METIS_NodeND(idx_t *nvtxs, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *options, idx_t *perm, idx_t *iperm); int METIS_Free(void *ptr); int METIS_SetDefaultOptions(idx_t *options); int METIS_NodeNDP(idx_t nvtxs, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t npes, idx_t *options, idx_t *perm, idx_t *iperm, idx_t *sizes); int METIS_ComputeVertexSeparator(idx_t *nvtxs, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *options, idx_t *sepsize, idx_t *part); int METIS_NodeRefine(idx_t nvtxs, idx_t *xadj, idx_t *vwgt, idx_t *adjncy, idx_t *where, idx_t *hmarker, real_t ubfactor); # 255 "/home/thl/petsc/fast_double/include/metis.h" typedef enum { METIS_OK = 1, METIS_ERROR_INPUT = -2, METIS_ERROR_MEMORY = -3, METIS_ERROR = -4 } rstatus_et; typedef enum { METIS_OP_PMETIS, METIS_OP_KMETIS, METIS_OP_OMETIS } moptype_et; typedef enum { METIS_OPTION_PTYPE, METIS_OPTION_OBJTYPE, METIS_OPTION_CTYPE, METIS_OPTION_IPTYPE, METIS_OPTION_RTYPE, METIS_OPTION_DBGLVL, METIS_OPTION_NITER, METIS_OPTION_NCUTS, METIS_OPTION_SEED, METIS_OPTION_NO2HOP, METIS_OPTION_MINCONN, METIS_OPTION_CONTIG, METIS_OPTION_COMPRESS, METIS_OPTION_CCORDER, METIS_OPTION_PFACTOR, METIS_OPTION_NSEPS, METIS_OPTION_UFACTOR, METIS_OPTION_NUMBERING, METIS_OPTION_HELP, METIS_OPTION_TPWGTS, METIS_OPTION_NCOMMON, METIS_OPTION_NOOUTPUT, METIS_OPTION_BALANCE, METIS_OPTION_GTYPE, METIS_OPTION_UBVEC } moptions_et; typedef enum { METIS_PTYPE_RB, METIS_PTYPE_KWAY } mptype_et; typedef enum { METIS_GTYPE_DUAL, METIS_GTYPE_NODAL } mgtype_et; typedef enum { METIS_CTYPE_RM, METIS_CTYPE_SHEM } mctype_et; typedef enum { METIS_IPTYPE_GROW, METIS_IPTYPE_RANDOM, METIS_IPTYPE_EDGE, METIS_IPTYPE_NODE, METIS_IPTYPE_METISRB } miptype_et; typedef enum { METIS_RTYPE_FM, METIS_RTYPE_GREEDY, METIS_RTYPE_SEP2SIDED, METIS_RTYPE_SEP1SIDED } mrtype_et; typedef enum { METIS_DBG_INFO = 1, METIS_DBG_TIME = 2, METIS_DBG_COARSEN = 4, METIS_DBG_REFINE = 8, METIS_DBG_IPART = 16, METIS_DBG_MOVEINFO = 32, METIS_DBG_SEPINFO = 64, METIS_DBG_CONNINFO = 128, METIS_DBG_CONTIGINFO = 256, METIS_DBG_MEMORY = 2048, } mdbglvl_et; typedef enum { METIS_OBJTYPE_CUT, METIS_OBJTYPE_VOL, METIS_OBJTYPE_NODE } mobjtype_et; # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['metis.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.metis(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.metis(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.pragmatic(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.pragmatic(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.parmetis(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.parmetis(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.parmetis(/global/home/thl/petsc/config/BuildSystem/config/packages/parmetis.py:42) TESTING: configureLibrary from config.packages.parmetis(config/BuildSystem/config/packages/parmetis.py:42) ================================================================================== Checking for a functional parmetis Looking for PARMETIS at git.parmetis, hg.parmetis or a directory starting with ['petsc-pkg-parmetis'] Could not locate an existing copy of PARMETIS: ['git.sowing', 'fblaslapack-3.4.2', 'zlib-1.2.11', 'git.metis'] Downloading parmetis =============================================================================== Trying to download git://https://bitbucket.org/petsc/pkg-parmetis.git for PARMETIS =============================================================================== Executing: git clone https://bitbucket.org/petsc/pkg-parmetis.git /global/home/thl/petsc/fast_double/externalpackages/git.parmetis stdout: Initialized empty Git repository in /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/.git/ Looking for PARMETIS at git.parmetis, hg.parmetis or a directory starting with ['petsc-pkg-parmetis'] Found a copy of PARMETIS in git.parmetis Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'v4.0.3-p4^{commit}'] Executing: ['git', 'rev-parse', 'v4.0.3-p4'] stdout: 73dab469aa363afcdce33cde3e5575554d7ce78c Executing: ['git', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] Executing: ['git', 'checkout', '-f', '73dab469aa363afcdce33cde3e5575554d7ce78c'] Pushing language C Popping language C Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Have to rebuild PARMETIS, /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/parmetis.petscconf != /home/thl/petsc/fast_double/lib/petsc/conf/pkg.conf.parmetis =============================================================================== Configuring PARMETIS with cmake, this may take several minutes =============================================================================== Executing: cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake .. -DCMAKE_INSTALL_PREFIX=/home/thl/petsc/fast_double -DCMAKE_VERBOSE_MAKEFILE=1 -DCMAKE_C_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" -DCMAKE_AR=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar -DCMAKE_RANLIB=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib -DCMAKE_C_FLAGS:STRING="-fPIC -fstack-protector -O3" -DCMAKE_CXX_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx" -DCMAKE_CXX_FLAGS:STRING="-fstack-protector -g -O -fPIC" -DCMAKE_Fortran_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90" -DCMAKE_Fortran_FLAGS:STRING="-fPIC -ffree-line-length-0 -O3" -DBUILD_SHARED_LIBS=on -DGKLIB_PATH=../headers -DSHARED=1 -DCMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=ON -DMETIS_USE_DOUBLEPRECISION=1 stdout: -- The C compiler identification is GNU 4.9.3 -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Configuring done -- Generating done -- Build files have been written to: /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build =============================================================================== Compiling and installing PARMETIS; this may take several minutes =============================================================================== Executing: cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build && /usr/bin/gmake -j 10 && /usr/bin/gmake install stdout: /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.parmetis -B/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' /usr/bin/gmake -f libparmetis/CMakeFiles/parmetis.dir/build.make 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/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/wave.c [ 95%] Building C object libparmetis/CMakeFiles/parmetis.dir/wspace.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/libparmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dparmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/headers -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/metis/include -I/home/thl/petsc/fast_double/include -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/. -fPIC -fstack-protector -O3 -fPIC -o CMakeFiles/parmetis.dir/wspace.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/wspace.c [ 95%] Building C object libparmetis/CMakeFiles/parmetis.dir/weird.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/libparmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dparmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/headers -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/metis/include -I/home/thl/petsc/fast_double/include -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/. -fPIC -fstack-protector -O3 -fPIC -o CMakeFiles/parmetis.dir/weird.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/weird.c [ 97%] Building C object libparmetis/CMakeFiles/parmetis.dir/xyzpart.c.o cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/libparmetis && /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -Dparmetis_EXPORTS -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/include -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/headers -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/metis/include -I/home/thl/petsc/fast_double/include -I/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/. -fPIC -fstack-protector -O3 -fPIC -o CMakeFiles/parmetis.dir/xyzpart.c.o -c /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis/xyzpart.c [100%] Linking C shared library libparmetis.so cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/libparmetis && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_link_script CMakeFiles/parmetis.dir/link.txt --verbose=1 /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -fPIC -fPIC -fstack-protector -O3 -shared -Wl,-soname,libparmetis.so -o libparmetis.so CMakeFiles/parmetis.dir/ComputeVertexSeparator.c.o CMakeFiles/parmetis.dir/akwayfm.c.o CMakeFiles/parmetis.dir/ametis.c.o CMakeFiles/parmetis.dir/balancemylink.c.o CMakeFiles/parmetis.dir/comm.c.o CMakeFiles/parmetis.dir/csrmatch.c.o CMakeFiles/parmetis.dir/ctrl.c.o CMakeFiles/parmetis.dir/debug.c.o CMakeFiles/parmetis.dir/diffutil.c.o CMakeFiles/parmetis.dir/frename.c.o CMakeFiles/parmetis.dir/gkmetis.c.o CMakeFiles/parmetis.dir/gkmpi.c.o CMakeFiles/parmetis.dir/graph.c.o CMakeFiles/parmetis.dir/initbalance.c.o CMakeFiles/parmetis.dir/initmsection.c.o CMakeFiles/parmetis.dir/initpart.c.o CMakeFiles/parmetis.dir/kmetis.c.o CMakeFiles/parmetis.dir/kwayrefine.c.o CMakeFiles/parmetis.dir/match.c.o CMakeFiles/parmetis.dir/mdiffusion.c.o CMakeFiles/parmetis.dir/mesh.c.o CMakeFiles/parmetis.dir/mmetis.c.o CMakeFiles/parmetis.dir/move.c.o CMakeFiles/parmetis.dir/msetup.c.o CMakeFiles/parmetis.dir/node_refine.c.o CMakeFiles/parmetis.dir/ometis.c.o CMakeFiles/parmetis.dir/pspases.c.o CMakeFiles/parmetis.dir/redomylink.c.o CMakeFiles/parmetis.dir/remap.c.o CMakeFiles/parmetis.dir/renumber.c.o CMakeFiles/parmetis.dir/rmetis.c.o CMakeFiles/parmetis.dir/selectq.c.o CMakeFiles/parmetis.dir/serial.c.o CMakeFiles/parmetis.dir/stat.c.o CMakeFiles/parmetis.dir/timer.c.o CMakeFiles/parmetis.dir/util.c.o CMakeFiles/parmetis.dir/wave.c.o CMakeFiles/parmetis.dir/weird.c.o CMakeFiles/parmetis.dir/wspace.c.o CMakeFiles/parmetis.dir/xyzpart.c.o -L/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/metis/lib -L/home/thl/petsc/fast_double/lib -lmetis -Wl,-rpath,/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/metis/lib:/home/thl/petsc/fast_double/lib: gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' [100%] Built target parmetis gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/CMakeFiles 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.parmetis -B/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' /usr/bin/gmake -f libparmetis/CMakeFiles/parmetis.dir/build.make libparmetis/CMakeFiles/parmetis.dir/depend gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' cd /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_depends "Unix Makefiles" /global/home/thl/petsc/fast_double/externalpackages/git.parmetis /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/libparmetis /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/libparmetis /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/libparmetis/CMakeFiles/parmetis.dir/DependInfo.cmake --color= gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' /usr/bin/gmake -f libparmetis/CMakeFiles/parmetis.dir/build.make libparmetis/CMakeFiles/parmetis.dir/build gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' gmake[2]: Nothing to be done for `libparmetis/CMakeFiles/parmetis.dir/build'. gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' [100%] Built target parmetis gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build/CMakeFiles 0 /usr/bin/gmake -f CMakeFiles/Makefile2 preinstall gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' gmake[1]: Nothing to be done for `preinstall'. gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.parmetis/build' Install the project... /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -P cmake_install.cmake -- Install configuration: "" -- Installing: /home/thl/petsc/fast_double/include/parmetis.h -- Installing: /home/thl/petsc/fast_double/lib/libparmetis.so -- Set runtime path of "/home/thl/petsc/fast_double/lib/libparmetis.so" to "/home/thl/petsc/fast_double/lib"********End of Output of running make on PARMETIS ******* Checking for library in Download PARMETIS: ['/home/thl/petsc/fast_double/lib/libparmetis.a'] Contents: ['include', 'lib', 'bin', 'externalpackages', 'share', 'initial_cache_file.cmake', 'CMakeFiles', 'cmake_install.cmake', 'CMakeCache.txt', 'Makefile'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [ParMETIS_V3_PartKway] in library ['/home/thl/petsc/fast_double/lib/libparmetis.a'] ['/home/thl/petsc/fast_double/lib/libmetis.a', 'libm.a'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ParMETIS_V3_PartKway(); static void _check_ParMETIS_V3_PartKway() { ParMETIS_V3_PartKway(); } int main() { _check_ParMETIS_V3_PartKway();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBPARMETIS" to "1" Popping language C Checking for headers Download PARMETIS: ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['parmetis.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '/home/thl/petsc/fast_double/include'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.headers -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -I/home/thl/petsc/fast_double/include /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/home/thl/petsc/fast_double/include/parmetis.h" 1 # 17 "/home/thl/petsc/fast_double/include/parmetis.h" # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 1 # 225 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 226 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 258 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi_portable_platform.h" 1 # 259 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 323 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef ptrdiff_t MPI_Aint; typedef long long MPI_Offset; typedef long long MPI_Count; typedef struct ompi_communicator_t *MPI_Comm; typedef struct ompi_datatype_t *MPI_Datatype; typedef struct ompi_errhandler_t *MPI_Errhandler; typedef struct ompi_file_t *MPI_File; typedef struct ompi_group_t *MPI_Group; typedef struct ompi_info_t *MPI_Info; typedef struct ompi_op_t *MPI_Op; typedef struct ompi_request_t *MPI_Request; typedef struct ompi_message_t *MPI_Message; typedef struct ompi_status_public_t MPI_Status; typedef struct ompi_win_t *MPI_Win; typedef struct mca_base_var_enum_t *MPI_T_enum; typedef struct ompi_mpit_cvar_handle_t *MPI_T_cvar_handle; typedef struct mca_base_pvar_handle_t *MPI_T_pvar_handle; typedef struct mca_base_pvar_session_t *MPI_T_pvar_session; struct ompi_status_public_t { int MPI_SOURCE; int MPI_TAG; int MPI_ERROR; int _cancelled; size_t _ucount; }; typedef struct ompi_status_public_t ompi_status_public_t; # 370 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef int (MPI_Copy_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Delete_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Datarep_extent_function)(MPI_Datatype, MPI_Aint *, void *); typedef int (MPI_Datarep_conversion_function)(void *, MPI_Datatype, int, void *, MPI_Offset, void *); typedef void (MPI_Comm_errhandler_function)(MPI_Comm *, int *, ...); typedef MPI_Comm_errhandler_function MPI_Comm_errhandler_fn __attribute__((__deprecated__("MPI_Comm_errhandler_fn was deprecated in MPI-2.2; use MPI_Comm_errhandler_function instead"))); typedef void (ompi_file_errhandler_fn)(MPI_File *, int *, ...); typedef ompi_file_errhandler_fn MPI_File_errhandler_fn __attribute__((__deprecated__("MPI_File_errhandler_fn was deprecated in MPI-2.2; use MPI_File_errhandler_function instead"))); typedef ompi_file_errhandler_fn MPI_File_errhandler_function; typedef void (MPI_Win_errhandler_function)(MPI_Win *, int *, ...); typedef MPI_Win_errhandler_function MPI_Win_errhandler_fn __attribute__((__deprecated__("MPI_Win_errhandler_fn was deprecated in MPI-2.2; use MPI_Win_errhandler_function instead"))); typedef void (MPI_Handler_function)(MPI_Comm *, int *, ...); typedef void (MPI_User_function)(void *, void *, int *, MPI_Datatype *); typedef int (MPI_Comm_copy_attr_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Comm_delete_attr_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Type_copy_attr_function)(MPI_Datatype, int, void *, void *, void *, int *); typedef int (MPI_Type_delete_attr_function)(MPI_Datatype, int, void *, void *); typedef int (MPI_Win_copy_attr_function)(MPI_Win, int, void *, void *, void *, int *); typedef int (MPI_Win_delete_attr_function)(MPI_Win, int, void *, void *); typedef int (MPI_Grequest_query_function)(void *, MPI_Status *); typedef int (MPI_Grequest_free_function)(void *); typedef int (MPI_Grequest_cancel_function)(void *, int); # 506 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_TAG_UB, MPI_HOST, MPI_IO, MPI_WTIME_IS_GLOBAL, MPI_APPNUM, MPI_LASTUSEDCODE, MPI_UNIVERSE_SIZE, MPI_WIN_BASE, MPI_WIN_SIZE, MPI_WIN_DISP_UNIT, MPI_WIN_CREATE_FLAVOR, MPI_WIN_MODEL, IMPI_CLIENT_SIZE, IMPI_CLIENT_COLOR, IMPI_HOST_SIZE, IMPI_HOST_COLOR }; # 623 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_IDENT, MPI_CONGRUENT, MPI_SIMILAR, MPI_UNEQUAL }; enum { MPI_THREAD_SINGLE, MPI_THREAD_FUNNELED, MPI_THREAD_SERIALIZED, MPI_THREAD_MULTIPLE }; enum { MPI_COMBINER_NAMED, MPI_COMBINER_DUP, MPI_COMBINER_CONTIGUOUS, MPI_COMBINER_VECTOR, MPI_COMBINER_HVECTOR_INTEGER, MPI_COMBINER_HVECTOR, MPI_COMBINER_INDEXED, MPI_COMBINER_HINDEXED_INTEGER, MPI_COMBINER_HINDEXED, MPI_COMBINER_INDEXED_BLOCK, MPI_COMBINER_STRUCT_INTEGER, MPI_COMBINER_STRUCT, MPI_COMBINER_SUBARRAY, MPI_COMBINER_DARRAY, MPI_COMBINER_F90_REAL, MPI_COMBINER_F90_COMPLEX, MPI_COMBINER_F90_INTEGER, MPI_COMBINER_RESIZED, MPI_COMBINER_HINDEXED_BLOCK }; enum { MPI_COMM_TYPE_SHARED }; enum { MPI_T_VERBOSITY_USER_BASIC, MPI_T_VERBOSITY_USER_DETAIL, MPI_T_VERBOSITY_USER_ALL, MPI_T_VERBOSITY_TUNER_BASIC, MPI_T_VERBOSITY_TUNER_DETAIL, MPI_T_VERBOSITY_TUNER_ALL, MPI_T_VERBOSITY_MPIDEV_BASIC, MPI_T_VERBOSITY_MPIDEV_DETAIL, MPI_T_VERBOSITY_MPIDEV_ALL }; enum { MPI_T_SCOPE_CONSTANT, MPI_T_SCOPE_READONLY, MPI_T_SCOPE_LOCAL, MPI_T_SCOPE_GROUP, MPI_T_SCOPE_GROUP_EQ, MPI_T_SCOPE_ALL, MPI_T_SCOPE_ALL_EQ }; enum { MPI_T_BIND_NO_OBJECT, MPI_T_BIND_MPI_COMM, MPI_T_BIND_MPI_DATATYPE, MPI_T_BIND_MPI_ERRHANDLER, MPI_T_BIND_MPI_FILE, MPI_T_BIND_MPI_GROUP, MPI_T_BIND_MPI_OP, MPI_T_BIND_MPI_REQUEST, MPI_T_BIND_MPI_WIN, MPI_T_BIND_MPI_MESSAGE, MPI_T_BIND_MPI_INFO }; enum { MPI_T_PVAR_CLASS_STATE, MPI_T_PVAR_CLASS_LEVEL, MPI_T_PVAR_CLASS_SIZE, MPI_T_PVAR_CLASS_PERCENTAGE, MPI_T_PVAR_CLASS_HIGHWATERMARK, MPI_T_PVAR_CLASS_LOWWATERMARK, MPI_T_PVAR_CLASS_COUNTER, MPI_T_PVAR_CLASS_AGGREGATE, MPI_T_PVAR_CLASS_TIMER, MPI_T_PVAR_CLASS_GENERIC }; # 812 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_DELETE_FN( MPI_Datatype datatype, int type_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_COPY_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_DUP_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ) __attribute__((__deprecated__("MPI_NULL_DELETE_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_NULL_COPY_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_DUP_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_DELETE_FN( MPI_Win window, int win_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_COPY_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_DUP_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); # 882 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_world; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_self; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_null; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_empty; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_null; __attribute__((visibility("default"))) extern struct ompi_predefined_request_t ompi_request_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_no_proc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_null; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_min; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_max; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_sum; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_prod; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_land; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_band; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_maxloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_minloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_replace; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_no_op; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_datatype_null; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_lb __attribute__((__deprecated__("MPI_LB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ub __attribute__((__deprecated__("MPI_UB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_signed_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_byte; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_wchar; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_packed; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_character; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_longdbl_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex32; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_aint; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_offset; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_count; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_float_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_long_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errhandler_null; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_are_fatal; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_return; __attribute__((visibility("default"))) extern struct ompi_predefined_win_t ompi_mpi_win_null; __attribute__((visibility("default"))) extern struct ompi_predefined_file_t ompi_mpi_file_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_env; __attribute__((visibility("default"))) extern int *MPI_F_STATUS_IGNORE; __attribute__((visibility("default"))) extern int *MPI_F_STATUSES_IGNORE; # 1180 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int MPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int MPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int MPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int MPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int MPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int MPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int MPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int MPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int MPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int MPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int MPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int MPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int MPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int MPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int MPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int MPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int MPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm MPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int MPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int MPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int MPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int MPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int MPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int MPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int MPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int MPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int MPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int MPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int MPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int MPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler MPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int MPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int MPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File MPI_File_f2c(int file); __attribute__((visibility("default"))) int MPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int MPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int MPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int MPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int MPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int MPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int MPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int MPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int MPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int MPI_Finalize(void); __attribute__((visibility("default"))) int MPI_Finalized(int *flag); __attribute__((visibility("default"))) int MPI_Free_mem(void *base); __attribute__((visibility("default"))) int MPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int MPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int MPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int MPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int MPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int MPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int MPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int MPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int MPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int MPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int MPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int MPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int MPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group MPI_Group_f2c(int group); __attribute__((visibility("default"))) int MPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int MPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int MPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int MPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int MPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int MPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int MPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info MPI_Info_f2c(int info); __attribute__((visibility("default"))) int MPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int MPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int MPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int MPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int MPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int MPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int MPI_Initialized(int *flag); __attribute__((visibility("default"))) int MPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int MPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int MPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int MPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message MPI_Message_f2c(int message); __attribute__((visibility("default"))) int MPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int MPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int MPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int MPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op MPI_Op_f2c(int op); __attribute__((visibility("default"))) int MPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int MPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int MPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int MPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int MPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Query_thread(int *provided); __attribute__((visibility("default"))) int MPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op op); __attribute__((visibility("default"))) int MPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int MPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request MPI_Request_f2c(int request); __attribute__((visibility("default"))) int MPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int MPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int MPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int MPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int MPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int MPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int MPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int MPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int MPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int MPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype MPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int MPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int MPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int MPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int MPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int MPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int MPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int MPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int MPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int MPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int MPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status *array_of_statuses); __attribute__((visibility("default"))) int MPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int MPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int MPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int MPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win MPI_Win_f2c(int win); __attribute__((visibility("default"))) int MPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int MPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int MPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int MPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int MPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int MPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double MPI_Wtick(void); __attribute__((visibility("default"))) double MPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int PMPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int PMPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int PMPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int PMPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int PMPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int PMPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int PMPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int PMPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int PMPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int PMPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int PMPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int PMPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int PMPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int PMPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int PMPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int PMPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm PMPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int PMPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int PMPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int PMPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int PMPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int PMPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int PMPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int PMPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int PMPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler PMPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int PMPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int PMPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File PMPI_File_f2c(int file); __attribute__((visibility("default"))) int PMPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int PMPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int PMPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int PMPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int PMPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int PMPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int PMPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int PMPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int PMPI_Finalize(void); __attribute__((visibility("default"))) int PMPI_Finalized(int *flag); __attribute__((visibility("default"))) int PMPI_Free_mem(void *base); __attribute__((visibility("default"))) int PMPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int PMPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int PMPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int PMPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int PMPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int PMPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int PMPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int PMPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int PMPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int PMPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int PMPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int PMPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int PMPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group PMPI_Group_f2c(int group); __attribute__((visibility("default"))) int PMPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int PMPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int PMPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int PMPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int PMPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int PMPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info PMPI_Info_f2c(int info); __attribute__((visibility("default"))) int PMPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int PMPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int PMPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int PMPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int PMPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int PMPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int PMPI_Initialized(int *flag); __attribute__((visibility("default"))) int PMPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int PMPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int PMPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int PMPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message PMPI_Message_f2c(int message); __attribute__((visibility("default"))) int PMPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int PMPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int PMPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op PMPI_Op_f2c(int op); __attribute__((visibility("default"))) int PMPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int PMPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int PMPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int PMPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Query_thread(int *provided); __attribute__((visibility("default"))) int PMPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op); __attribute__((visibility("default"))) int PMPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int PMPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request PMPI_Request_f2c(int request); __attribute__((visibility("default"))) int PMPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int PMPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int PMPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int PMPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int PMPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int PMPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int PMPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int PMPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int PMPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int PMPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype PMPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int PMPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int PMPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int PMPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int PMPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int PMPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int PMPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int PMPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int PMPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int PMPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int PMPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int PMPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int PMPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win PMPI_Win_f2c(int win); __attribute__((visibility("default"))) int PMPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int PMPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int PMPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int PMPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int PMPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double PMPI_Wtick(void); __attribute__((visibility("default"))) double PMPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int PMPI_T_finalize (void); __attribute__((visibility("default"))) int PMPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int PMPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int PMPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int PMPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int PMPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int PMPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int PMPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int PMPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int PMPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int PMPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int PMPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int MPI_T_finalize (void); __attribute__((visibility("default"))) int MPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int MPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int MPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int MPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int MPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int MPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int MPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int MPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int MPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int MPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int MPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); # 18 "/home/thl/petsc/fast_double/include/parmetis.h" 2 # 1 "/home/thl/petsc/fast_double/include/metis.h" 1 # 94 "/home/thl/petsc/fast_double/include/metis.h" # 1 "/usr/include/inttypes.h" 1 3 4 # 26 "/usr/include/inttypes.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 27 "/usr/include/inttypes.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 27 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 37 "/usr/include/stdint.h" 3 4 typedef signed char int8_t; typedef short int int16_t; typedef int int32_t; typedef long int int64_t; typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 29 "/usr/include/inttypes.h" 2 3 4 typedef int __gwchar_t; # 274 "/usr/include/inttypes.h" 3 4 typedef struct { long int quot; long int rem; } imaxdiv_t; # 298 "/usr/include/inttypes.h" 3 4 extern intmax_t imaxabs (intmax_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern imaxdiv_t imaxdiv (intmax_t __numer, intmax_t __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern intmax_t strtoimax (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t strtoumax (__const char *__restrict __nptr, char ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern intmax_t wcstoimax (__const __gwchar_t *__restrict __nptr, __gwchar_t **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t wcstoumax (__const __gwchar_t *__restrict __nptr, __gwchar_t ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); # 442 "/usr/include/inttypes.h" 3 4 # 95 "/home/thl/petsc/fast_double/include/metis.h" 2 # 103 "/home/thl/petsc/fast_double/include/metis.h" typedef int32_t idx_t; # 151 "/home/thl/petsc/fast_double/include/metis.h" typedef double real_t; # 199 "/home/thl/petsc/fast_double/include/metis.h" int METIS_PartGraphRecursive(idx_t *nvtxs, idx_t *ncon, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *vsize, idx_t *adjwgt, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part); int METIS_PartGraphKway(idx_t *nvtxs, idx_t *ncon, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *vsize, idx_t *adjwgt, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part); int METIS_MeshToDual(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *ncommon, idx_t *numflag, idx_t **r_xadj, idx_t **r_adjncy); int METIS_MeshToNodal(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *numflag, idx_t **r_xadj, idx_t **r_adjncy); int METIS_PartMeshNodal(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *vwgt, idx_t *vsize, idx_t *nparts, real_t *tpwgts, idx_t *options, idx_t *objval, idx_t *epart, idx_t *npart); int METIS_PartMeshDual(idx_t *ne, idx_t *nn, idx_t *eptr, idx_t *eind, idx_t *vwgt, idx_t *vsize, idx_t *ncommon, idx_t *nparts, real_t *tpwgts, idx_t *options, idx_t *objval, idx_t *epart, idx_t *npart); int METIS_NodeND(idx_t *nvtxs, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *options, idx_t *perm, idx_t *iperm); int METIS_Free(void *ptr); int METIS_SetDefaultOptions(idx_t *options); int METIS_NodeNDP(idx_t nvtxs, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t npes, idx_t *options, idx_t *perm, idx_t *iperm, idx_t *sizes); int METIS_ComputeVertexSeparator(idx_t *nvtxs, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *options, idx_t *sepsize, idx_t *part); int METIS_NodeRefine(idx_t nvtxs, idx_t *xadj, idx_t *vwgt, idx_t *adjncy, idx_t *where, idx_t *hmarker, real_t ubfactor); # 255 "/home/thl/petsc/fast_double/include/metis.h" typedef enum { METIS_OK = 1, METIS_ERROR_INPUT = -2, METIS_ERROR_MEMORY = -3, METIS_ERROR = -4 } rstatus_et; typedef enum { METIS_OP_PMETIS, METIS_OP_KMETIS, METIS_OP_OMETIS } moptype_et; typedef enum { METIS_OPTION_PTYPE, METIS_OPTION_OBJTYPE, METIS_OPTION_CTYPE, METIS_OPTION_IPTYPE, METIS_OPTION_RTYPE, METIS_OPTION_DBGLVL, METIS_OPTION_NITER, METIS_OPTION_NCUTS, METIS_OPTION_SEED, METIS_OPTION_NO2HOP, METIS_OPTION_MINCONN, METIS_OPTION_CONTIG, METIS_OPTION_COMPRESS, METIS_OPTION_CCORDER, METIS_OPTION_PFACTOR, METIS_OPTION_NSEPS, METIS_OPTION_UFACTOR, METIS_OPTION_NUMBERING, METIS_OPTION_HELP, METIS_OPTION_TPWGTS, METIS_OPTION_NCOMMON, METIS_OPTION_NOOUTPUT, METIS_OPTION_BALANCE, METIS_OPTION_GTYPE, METIS_OPTION_UBVEC } moptions_et; typedef enum { METIS_PTYPE_RB, METIS_PTYPE_KWAY } mptype_et; typedef enum { METIS_GTYPE_DUAL, METIS_GTYPE_NODAL } mgtype_et; typedef enum { METIS_CTYPE_RM, METIS_CTYPE_SHEM } mctype_et; typedef enum { METIS_IPTYPE_GROW, METIS_IPTYPE_RANDOM, METIS_IPTYPE_EDGE, METIS_IPTYPE_NODE, METIS_IPTYPE_METISRB } miptype_et; typedef enum { METIS_RTYPE_FM, METIS_RTYPE_GREEDY, METIS_RTYPE_SEP2SIDED, METIS_RTYPE_SEP1SIDED } mrtype_et; typedef enum { METIS_DBG_INFO = 1, METIS_DBG_TIME = 2, METIS_DBG_COARSEN = 4, METIS_DBG_REFINE = 8, METIS_DBG_IPART = 16, METIS_DBG_MOVEINFO = 32, METIS_DBG_SEPINFO = 64, METIS_DBG_CONNINFO = 128, METIS_DBG_CONTIGINFO = 256, METIS_DBG_MEMORY = 2048, } mdbglvl_et; typedef enum { METIS_OBJTYPE_CUT, METIS_OBJTYPE_VOL, METIS_OBJTYPE_NODE } mobjtype_et; # 19 "/home/thl/petsc/fast_double/include/parmetis.h" 2 # 67 "/home/thl/petsc/fast_double/include/parmetis.h" int ParMETIS_V3_PartKway( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *adjwgt, idx_t *wgtflag, idx_t *numflag, idx_t *ncon, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part, MPI_Comm *comm); int ParMETIS_V3_PartGeomKway( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *adjwgt, idx_t *wgtflag, idx_t *numflag, idx_t *ndims, real_t *xyz, idx_t *ncon, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part, MPI_Comm *comm); int ParMETIS_V3_PartGeom( idx_t *vtxdist, idx_t *ndims, real_t *xyz, idx_t *part, MPI_Comm *comm); int ParMETIS_V3_RefineKway( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *adjwgt, idx_t *wgtflag, idx_t *numflag, idx_t *ncon, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part, MPI_Comm *comm); int ParMETIS_V3_AdaptiveRepart( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *vsize, idx_t *adjwgt, idx_t *wgtflag, idx_t *numflag, idx_t *ncon, idx_t *nparts, real_t *tpwgts, real_t *ubvec, real_t *ipc2redist, idx_t *options, idx_t *edgecut, idx_t *part, MPI_Comm *comm); int ParMETIS_V3_Mesh2Dual( idx_t *elmdist, idx_t *eptr, idx_t *eind, idx_t *numflag, idx_t *ncommonnodes, idx_t **xadj, idx_t **adjncy, MPI_Comm *comm); int ParMETIS_V3_PartMeshKway( idx_t *elmdist, idx_t *eptr, idx_t *eind, idx_t *elmwgt, idx_t *wgtflag, idx_t *numflag, idx_t *ncon, idx_t *ncommonnodes, idx_t *nparts, real_t *tpwgts, real_t *ubvec, idx_t *options, idx_t *edgecut, idx_t *part, MPI_Comm *comm); int ParMETIS_V3_NodeND( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *numflag, idx_t *options, idx_t *order, idx_t *sizes, MPI_Comm *comm); int ParMETIS_V32_NodeND( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *vwgt, idx_t *numflag, idx_t *mtype, idx_t *rtype, idx_t *p_nseps, idx_t *s_nseps, real_t *ubfrac, idx_t *seed, idx_t *dbglvl, idx_t *order, idx_t *sizes, MPI_Comm *comm); int ParMETIS_SerialNodeND( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *numflag, idx_t *options, idx_t *order, idx_t *sizes, MPI_Comm *comm); void ParMETIS_ComputeVertexSeparator( idx_t *vtxdist, idx_t *xadj, idx_t *adjncy, idx_t *p_nseps, idx_t *s_nseps, real_t *ubfrac, idx_t *idbglvl, idx_t *order, idx_t *sizes, MPI_Comm *comm); # 133 "/home/thl/petsc/fast_double/include/parmetis.h" typedef enum { PARMETIS_OP_KMETIS, PARMETIS_OP_GKMETIS, PARMETIS_OP_GMETIS, PARMETIS_OP_RMETIS, PARMETIS_OP_AMETIS, PARMETIS_OP_OMETIS, PARMETIS_OP_M2DUAL, PARMETIS_OP_MKMETIS } pmoptype_et; # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['parmetis.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C Checking for functions [ParMETIS_ComputeVertexSeparator] in library ['/home/thl/petsc/fast_double/lib/libparmetis.a'] ['/home/thl/petsc/fast_double/lib/libmetis.a', 'libm.a'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ParMETIS_ComputeVertexSeparator(); static void _check_ParMETIS_ComputeVertexSeparator() { ParMETIS_ComputeVertexSeparator(); } int main() { _check_ParMETIS_ComputeVertexSeparator();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBPARMETIS" to "1" Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.parmetis(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.parmetis(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.Zoltan(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Zoltan(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.hdf5(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.hdf5(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.hdf5(/global/home/thl/petsc/config/BuildSystem/config/packages/hdf5.py:54) TESTING: configureLibrary from config.packages.hdf5(config/BuildSystem/config/packages/hdf5.py:54) ================================================================================== Checking for a functional hdf5 Checking for library in User specified root directory HDF5: ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/libhdf5hl_fortran.a', 'libhdf5_fortran.a', 'libhdf5_hl.a', 'libhdf5.a'] Contents: ['lib', 'include', 'bin', 'share', 'easybuild'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [H5T_init] in library ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/libhdf5hl_fortran.a', 'libhdf5_fortran.a', 'libhdf5_hl.a', 'libhdf5.a'] ['/home/thl/petsc/fast_double/lib/libz.a', 'libm.a'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char H5T_init(); static void _check_H5T_init() { H5T_init(); } int main() { _check_H5T_init();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBHDF5HL_FORTRAN" to "1" Defined "HAVE_LIBHDF5_FORTRAN" to "1" Defined "HAVE_LIBHDF5_HL" to "1" Defined "HAVE_LIBHDF5" to "1" Popping language C Checking for headers User specified root directory HDF5: ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['hdf5.h'] in ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '/home/thl/petsc/fast_double/include'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.headers -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -I/home/thl/petsc/fast_double/include /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 1 # 24 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 1 # 31 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5pubconf.h" 1 # 32 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5version.h" 1 # 35 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 38 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 217 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 218 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 41 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 34 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 1 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 168 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/usr/include/limits.h" 1 3 4 # 145 "/usr/include/limits.h" 3 4 # 1 "/usr/include/bits/posix1_lim.h" 1 3 4 # 157 "/usr/include/bits/posix1_lim.h" 3 4 # 1 "/usr/include/bits/local_lim.h" 1 3 4 # 39 "/usr/include/bits/local_lim.h" 3 4 # 1 "/usr/include/linux/limits.h" 1 3 4 # 40 "/usr/include/bits/local_lim.h" 2 3 4 # 158 "/usr/include/bits/posix1_lim.h" 2 3 4 # 146 "/usr/include/limits.h" 2 3 4 # 1 "/usr/include/bits/posix2_lim.h" 1 3 4 # 150 "/usr/include/limits.h" 2 3 4 # 169 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 8 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 2 3 4 # 35 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 44 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 1 3 4 # 9 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 3 4 # 1 "/usr/include/stdint.h" 1 3 4 # 27 "/usr/include/stdint.h" 3 4 # 1 "/usr/include/bits/wchar.h" 1 3 4 # 28 "/usr/include/stdint.h" 2 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/stdint.h" 2 3 4 # 49 "/usr/include/stdint.h" 3 4 typedef unsigned char uint8_t; typedef unsigned short int uint16_t; typedef unsigned int uint32_t; typedef unsigned long int uint64_t; # 66 "/usr/include/stdint.h" 3 4 typedef signed char int_least8_t; typedef short int int_least16_t; typedef int int_least32_t; typedef long int int_least64_t; typedef unsigned char uint_least8_t; typedef unsigned short int uint_least16_t; typedef unsigned int uint_least32_t; typedef unsigned long int uint_least64_t; # 91 "/usr/include/stdint.h" 3 4 typedef signed char int_fast8_t; typedef long int int_fast16_t; typedef long int int_fast32_t; typedef long int int_fast64_t; # 104 "/usr/include/stdint.h" 3 4 typedef unsigned char uint_fast8_t; typedef unsigned long int uint_fast16_t; typedef unsigned long int uint_fast32_t; typedef unsigned long int uint_fast64_t; # 120 "/usr/include/stdint.h" 3 4 typedef long int intptr_t; typedef unsigned long int uintptr_t; # 135 "/usr/include/stdint.h" 3 4 typedef long int intmax_t; typedef unsigned long int uintmax_t; # 10 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdint.h" 2 3 4 # 48 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/usr/include/inttypes.h" 1 3 4 # 35 "/usr/include/inttypes.h" 3 4 typedef int __gwchar_t; # 274 "/usr/include/inttypes.h" 3 4 typedef struct { long int quot; long int rem; } imaxdiv_t; # 298 "/usr/include/inttypes.h" 3 4 extern intmax_t imaxabs (intmax_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern imaxdiv_t imaxdiv (intmax_t __numer, intmax_t __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); extern intmax_t strtoimax (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t strtoumax (__const char *__restrict __nptr, char ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern intmax_t wcstoimax (__const __gwchar_t *__restrict __nptr, __gwchar_t **__restrict __endptr, int __base) __attribute__ ((__nothrow__)); extern uintmax_t wcstoumax (__const __gwchar_t *__restrict __nptr, __gwchar_t ** __restrict __endptr, int __base) __attribute__ ((__nothrow__)); # 442 "/usr/include/inttypes.h" 3 4 # 56 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 59 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 69 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5api_adpt.h" 1 # 70 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" 2 # 126 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" typedef int herr_t; # 144 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" typedef unsigned int hbool_t; typedef int htri_t; # 170 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" # 170 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" #pragma GCC diagnostic push # 170 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" # 170 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" #pragma GCC diagnostic ignored "-Wlong-long" # 170 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" typedef unsigned long long hsize_t; typedef signed long long hssize_t; # 173 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" #pragma GCC diagnostic pop # 173 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" # 184 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" typedef uint64_t haddr_t; # 286 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" typedef enum { H5_ITER_UNKNOWN = -1, H5_ITER_INC, H5_ITER_DEC, H5_ITER_NATIVE, H5_ITER_N } H5_iter_order_t; # 307 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5public.h" typedef enum H5_index_t { H5_INDEX_UNKNOWN = -1, H5_INDEX_NAME, H5_INDEX_CRT_ORDER, H5_INDEX_N } H5_index_t; typedef struct H5_ih_info_t { hsize_t index_size; hsize_t heap_size; } H5_ih_info_t; herr_t H5open(void); herr_t H5close(void); herr_t H5dont_atexit(void); herr_t H5garbage_collect(void); herr_t H5set_free_list_limits (int reg_global_lim, int reg_list_lim, int arr_global_lim, int arr_list_lim, int blk_global_lim, int blk_list_lim); herr_t H5get_libversion(unsigned *majnum, unsigned *minnum, unsigned *relnum); herr_t H5check_version(unsigned majnum, unsigned minnum, unsigned relnum); herr_t H5is_library_threadsafe(hbool_t *is_ts); herr_t H5free_memory(void *mem); void *H5allocate_memory(size_t size, hbool_t clear); void *H5resize_memory(void *mem, size_t size); # 25 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Apublic.h" 1 # 23 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Apublic.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ipublic.h" 1 # 36 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ipublic.h" typedef enum H5I_type_t { H5I_UNINIT = (-2), H5I_BADID = (-1), H5I_FILE = 1, H5I_GROUP, H5I_DATATYPE, H5I_DATASPACE, H5I_DATASET, H5I_ATTR, H5I_REFERENCE, H5I_VFL, H5I_GENPROP_CLS, H5I_GENPROP_LST, H5I_ERROR_CLASS, H5I_ERROR_MSG, H5I_ERROR_STACK, H5I_NTYPES } H5I_type_t; typedef int hid_t; # 69 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ipublic.h" typedef herr_t (*H5I_free_t)(void*); typedef int (*H5I_search_func_t)(void *obj, hid_t id, void *key); hid_t H5Iregister(H5I_type_t type, const void *object); void *H5Iobject_verify(hid_t id, H5I_type_t id_type); void *H5Iremove_verify(hid_t id, H5I_type_t id_type); H5I_type_t H5Iget_type(hid_t id); hid_t H5Iget_file_id(hid_t id); ssize_t H5Iget_name(hid_t id, char *name , size_t size); int H5Iinc_ref(hid_t id); int H5Idec_ref(hid_t id); int H5Iget_ref(hid_t id); H5I_type_t H5Iregister_type(size_t hash_size, unsigned reserved, H5I_free_t free_func); herr_t H5Iclear_type(H5I_type_t type, hbool_t force); herr_t H5Idestroy_type(H5I_type_t type); int H5Iinc_type_ref(H5I_type_t type); int H5Idec_type_ref(H5I_type_t type); int H5Iget_type_ref(H5I_type_t type); void *H5Isearch(H5I_type_t type, H5I_search_func_t func, void *key); herr_t H5Inmembers(H5I_type_t type, hsize_t *num_members); htri_t H5Itype_exists(H5I_type_t type); htri_t H5Iis_valid(hid_t id); # 24 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Apublic.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Opublic.h" 1 # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Opublic.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Lpublic.h" 1 # 32 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Lpublic.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" 1 # 30 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" typedef enum H5T_class_t { H5T_NO_CLASS = -1, H5T_INTEGER = 0, H5T_FLOAT = 1, H5T_TIME = 2, H5T_STRING = 3, H5T_BITFIELD = 4, H5T_OPAQUE = 5, H5T_COMPOUND = 6, H5T_REFERENCE = 7, H5T_ENUM = 8, H5T_VLEN = 9, H5T_ARRAY = 10, H5T_NCLASSES } H5T_class_t; typedef enum H5T_order_t { H5T_ORDER_ERROR = -1, H5T_ORDER_LE = 0, H5T_ORDER_BE = 1, H5T_ORDER_VAX = 2, H5T_ORDER_MIXED = 3, H5T_ORDER_NONE = 4 } H5T_order_t; typedef enum H5T_sign_t { H5T_SGN_ERROR = -1, H5T_SGN_NONE = 0, H5T_SGN_2 = 1, H5T_NSGN = 2 } H5T_sign_t; typedef enum H5T_norm_t { H5T_NORM_ERROR = -1, H5T_NORM_IMPLIED = 0, H5T_NORM_MSBSET = 1, H5T_NORM_NONE = 2 } H5T_norm_t; typedef enum H5T_cset_t { H5T_CSET_ERROR = -1, H5T_CSET_ASCII = 0, H5T_CSET_UTF8 = 1, H5T_CSET_RESERVED_2 = 2, H5T_CSET_RESERVED_3 = 3, H5T_CSET_RESERVED_4 = 4, H5T_CSET_RESERVED_5 = 5, H5T_CSET_RESERVED_6 = 6, H5T_CSET_RESERVED_7 = 7, H5T_CSET_RESERVED_8 = 8, H5T_CSET_RESERVED_9 = 9, H5T_CSET_RESERVED_10 = 10, H5T_CSET_RESERVED_11 = 11, H5T_CSET_RESERVED_12 = 12, H5T_CSET_RESERVED_13 = 13, H5T_CSET_RESERVED_14 = 14, H5T_CSET_RESERVED_15 = 15 } H5T_cset_t; typedef enum H5T_str_t { H5T_STR_ERROR = -1, H5T_STR_NULLTERM = 0, H5T_STR_NULLPAD = 1, H5T_STR_SPACEPAD = 2, H5T_STR_RESERVED_3 = 3, H5T_STR_RESERVED_4 = 4, H5T_STR_RESERVED_5 = 5, H5T_STR_RESERVED_6 = 6, H5T_STR_RESERVED_7 = 7, H5T_STR_RESERVED_8 = 8, H5T_STR_RESERVED_9 = 9, H5T_STR_RESERVED_10 = 10, H5T_STR_RESERVED_11 = 11, H5T_STR_RESERVED_12 = 12, H5T_STR_RESERVED_13 = 13, H5T_STR_RESERVED_14 = 14, H5T_STR_RESERVED_15 = 15 } H5T_str_t; typedef enum H5T_pad_t { H5T_PAD_ERROR = -1, H5T_PAD_ZERO = 0, H5T_PAD_ONE = 1, H5T_PAD_BACKGROUND = 2, H5T_NPAD = 3 } H5T_pad_t; typedef enum H5T_cmd_t { H5T_CONV_INIT = 0, H5T_CONV_CONV = 1, H5T_CONV_FREE = 2 } H5T_cmd_t; typedef enum H5T_bkg_t { H5T_BKG_NO = 0, H5T_BKG_TEMP = 1, H5T_BKG_YES = 2 } H5T_bkg_t; typedef struct H5T_cdata_t { H5T_cmd_t command; H5T_bkg_t need_bkg; hbool_t recalc; void *priv; } H5T_cdata_t; typedef enum H5T_pers_t { H5T_PERS_DONTCARE = -1, H5T_PERS_HARD = 0, H5T_PERS_SOFT = 1 } H5T_pers_t; typedef enum H5T_direction_t { H5T_DIR_DEFAULT = 0, H5T_DIR_ASCEND = 1, H5T_DIR_DESCEND = 2 } H5T_direction_t; typedef enum H5T_conv_except_t { H5T_CONV_EXCEPT_RANGE_HI = 0, H5T_CONV_EXCEPT_RANGE_LOW = 1, H5T_CONV_EXCEPT_PRECISION = 2, H5T_CONV_EXCEPT_TRUNCATE = 3, H5T_CONV_EXCEPT_PINF = 4, H5T_CONV_EXCEPT_NINF = 5, H5T_CONV_EXCEPT_NAN = 6 } H5T_conv_except_t; typedef enum H5T_conv_ret_t { H5T_CONV_ABORT = -1, H5T_CONV_UNHANDLED = 0, H5T_CONV_HANDLED = 1 } H5T_conv_ret_t; typedef struct { size_t len; void *p; } hvl_t; # 209 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" typedef herr_t (*H5T_conv_t) (hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nelmts, size_t buf_stride, size_t bkg_stride, void *buf, void *bkg, hid_t dset_xfer_plist); typedef H5T_conv_ret_t (*H5T_conv_except_func_t)(H5T_conv_except_t except_type, hid_t src_id, hid_t dst_id, void *src_buf, void *dst_buf, void *user_data); # 234 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" extern hid_t H5T_IEEE_F32BE_g; extern hid_t H5T_IEEE_F32LE_g; extern hid_t H5T_IEEE_F64BE_g; extern hid_t H5T_IEEE_F64LE_g; # 269 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" extern hid_t H5T_STD_I8BE_g; extern hid_t H5T_STD_I8LE_g; extern hid_t H5T_STD_I16BE_g; extern hid_t H5T_STD_I16LE_g; extern hid_t H5T_STD_I32BE_g; extern hid_t H5T_STD_I32LE_g; extern hid_t H5T_STD_I64BE_g; extern hid_t H5T_STD_I64LE_g; extern hid_t H5T_STD_U8BE_g; extern hid_t H5T_STD_U8LE_g; extern hid_t H5T_STD_U16BE_g; extern hid_t H5T_STD_U16LE_g; extern hid_t H5T_STD_U32BE_g; extern hid_t H5T_STD_U32LE_g; extern hid_t H5T_STD_U64BE_g; extern hid_t H5T_STD_U64LE_g; extern hid_t H5T_STD_B8BE_g; extern hid_t H5T_STD_B8LE_g; extern hid_t H5T_STD_B16BE_g; extern hid_t H5T_STD_B16LE_g; extern hid_t H5T_STD_B32BE_g; extern hid_t H5T_STD_B32LE_g; extern hid_t H5T_STD_B64BE_g; extern hid_t H5T_STD_B64LE_g; extern hid_t H5T_STD_REF_OBJ_g; extern hid_t H5T_STD_REF_DSETREG_g; # 303 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" extern hid_t H5T_UNIX_D32BE_g; extern hid_t H5T_UNIX_D32LE_g; extern hid_t H5T_UNIX_D64BE_g; extern hid_t H5T_UNIX_D64LE_g; extern hid_t H5T_C_S1_g; extern hid_t H5T_FORTRAN_S1_g; # 383 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" extern hid_t H5T_VAX_F32_g; extern hid_t H5T_VAX_F64_g; # 421 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" extern hid_t H5T_NATIVE_SCHAR_g; extern hid_t H5T_NATIVE_UCHAR_g; extern hid_t H5T_NATIVE_SHORT_g; extern hid_t H5T_NATIVE_USHORT_g; extern hid_t H5T_NATIVE_INT_g; extern hid_t H5T_NATIVE_UINT_g; extern hid_t H5T_NATIVE_LONG_g; extern hid_t H5T_NATIVE_ULONG_g; extern hid_t H5T_NATIVE_LLONG_g; extern hid_t H5T_NATIVE_ULLONG_g; extern hid_t H5T_NATIVE_FLOAT_g; extern hid_t H5T_NATIVE_DOUBLE_g; extern hid_t H5T_NATIVE_LDOUBLE_g; extern hid_t H5T_NATIVE_B8_g; extern hid_t H5T_NATIVE_B16_g; extern hid_t H5T_NATIVE_B32_g; extern hid_t H5T_NATIVE_B64_g; extern hid_t H5T_NATIVE_OPAQUE_g; extern hid_t H5T_NATIVE_HADDR_g; extern hid_t H5T_NATIVE_HSIZE_g; extern hid_t H5T_NATIVE_HSSIZE_g; extern hid_t H5T_NATIVE_HERR_g; extern hid_t H5T_NATIVE_HBOOL_g; # 454 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" extern hid_t H5T_NATIVE_INT8_g; extern hid_t H5T_NATIVE_UINT8_g; extern hid_t H5T_NATIVE_INT_LEAST8_g; extern hid_t H5T_NATIVE_UINT_LEAST8_g; extern hid_t H5T_NATIVE_INT_FAST8_g; extern hid_t H5T_NATIVE_UINT_FAST8_g; extern hid_t H5T_NATIVE_INT16_g; extern hid_t H5T_NATIVE_UINT16_g; extern hid_t H5T_NATIVE_INT_LEAST16_g; extern hid_t H5T_NATIVE_UINT_LEAST16_g; extern hid_t H5T_NATIVE_INT_FAST16_g; extern hid_t H5T_NATIVE_UINT_FAST16_g; extern hid_t H5T_NATIVE_INT32_g; extern hid_t H5T_NATIVE_UINT32_g; extern hid_t H5T_NATIVE_INT_LEAST32_g; extern hid_t H5T_NATIVE_UINT_LEAST32_g; extern hid_t H5T_NATIVE_INT_FAST32_g; extern hid_t H5T_NATIVE_UINT_FAST32_g; extern hid_t H5T_NATIVE_INT64_g; extern hid_t H5T_NATIVE_UINT64_g; extern hid_t H5T_NATIVE_INT_LEAST64_g; extern hid_t H5T_NATIVE_UINT_LEAST64_g; extern hid_t H5T_NATIVE_INT_FAST64_g; extern hid_t H5T_NATIVE_UINT_FAST64_g; hid_t H5Tcreate(H5T_class_t type, size_t size); hid_t H5Tcopy(hid_t type_id); herr_t H5Tclose(hid_t type_id); htri_t H5Tequal(hid_t type1_id, hid_t type2_id); herr_t H5Tlock(hid_t type_id); herr_t H5Tcommit2(hid_t loc_id, const char *name, hid_t type_id, hid_t lcpl_id, hid_t tcpl_id, hid_t tapl_id); hid_t H5Topen2(hid_t loc_id, const char *name, hid_t tapl_id); herr_t H5Tcommit_anon(hid_t loc_id, hid_t type_id, hid_t tcpl_id, hid_t tapl_id); hid_t H5Tget_create_plist(hid_t type_id); htri_t H5Tcommitted(hid_t type_id); herr_t H5Tencode(hid_t obj_id, void *buf, size_t *nalloc); hid_t H5Tdecode(const void *buf); herr_t H5Tinsert(hid_t parent_id, const char *name, size_t offset, hid_t member_id); herr_t H5Tpack(hid_t type_id); hid_t H5Tenum_create(hid_t base_id); herr_t H5Tenum_insert(hid_t type, const char *name, const void *value); herr_t H5Tenum_nameof(hid_t type, const void *value, char *name , size_t size); herr_t H5Tenum_valueof(hid_t type, const char *name, void *value ); hid_t H5Tvlen_create(hid_t base_id); hid_t H5Tarray_create2(hid_t base_id, unsigned ndims, const hsize_t dim[ ]); int H5Tget_array_ndims(hid_t type_id); int H5Tget_array_dims2(hid_t type_id, hsize_t dims[]); herr_t H5Tset_tag(hid_t type, const char *tag); char *H5Tget_tag(hid_t type); hid_t H5Tget_super(hid_t type); H5T_class_t H5Tget_class(hid_t type_id); htri_t H5Tdetect_class(hid_t type_id, H5T_class_t cls); size_t H5Tget_size(hid_t type_id); H5T_order_t H5Tget_order(hid_t type_id); size_t H5Tget_precision(hid_t type_id); int H5Tget_offset(hid_t type_id); herr_t H5Tget_pad(hid_t type_id, H5T_pad_t *lsb , H5T_pad_t *msb ); H5T_sign_t H5Tget_sign(hid_t type_id); herr_t H5Tget_fields(hid_t type_id, size_t *spos , size_t *epos , size_t *esize , size_t *mpos , size_t *msize ); size_t H5Tget_ebias(hid_t type_id); H5T_norm_t H5Tget_norm(hid_t type_id); H5T_pad_t H5Tget_inpad(hid_t type_id); H5T_str_t H5Tget_strpad(hid_t type_id); int H5Tget_nmembers(hid_t type_id); char *H5Tget_member_name(hid_t type_id, unsigned membno); int H5Tget_member_index(hid_t type_id, const char *name); size_t H5Tget_member_offset(hid_t type_id, unsigned membno); H5T_class_t H5Tget_member_class(hid_t type_id, unsigned membno); hid_t H5Tget_member_type(hid_t type_id, unsigned membno); herr_t H5Tget_member_value(hid_t type_id, unsigned membno, void *value ); H5T_cset_t H5Tget_cset(hid_t type_id); htri_t H5Tis_variable_str(hid_t type_id); hid_t H5Tget_native_type(hid_t type_id, H5T_direction_t direction); herr_t H5Tset_size(hid_t type_id, size_t size); herr_t H5Tset_order(hid_t type_id, H5T_order_t order); herr_t H5Tset_precision(hid_t type_id, size_t prec); herr_t H5Tset_offset(hid_t type_id, size_t offset); herr_t H5Tset_pad(hid_t type_id, H5T_pad_t lsb, H5T_pad_t msb); herr_t H5Tset_sign(hid_t type_id, H5T_sign_t sign); herr_t H5Tset_fields(hid_t type_id, size_t spos, size_t epos, size_t esize, size_t mpos, size_t msize); herr_t H5Tset_ebias(hid_t type_id, size_t ebias); herr_t H5Tset_norm(hid_t type_id, H5T_norm_t norm); herr_t H5Tset_inpad(hid_t type_id, H5T_pad_t pad); herr_t H5Tset_cset(hid_t type_id, H5T_cset_t cset); herr_t H5Tset_strpad(hid_t type_id, H5T_str_t strpad); herr_t H5Tregister(H5T_pers_t pers, const char *name, hid_t src_id, hid_t dst_id, H5T_conv_t func); herr_t H5Tunregister(H5T_pers_t pers, const char *name, hid_t src_id, hid_t dst_id, H5T_conv_t func); H5T_conv_t H5Tfind(hid_t src_id, hid_t dst_id, H5T_cdata_t **pcdata); htri_t H5Tcompiler_conv(hid_t src_id, hid_t dst_id); herr_t H5Tconvert(hid_t src_id, hid_t dst_id, size_t nelmts, void *buf, void *background, hid_t plist_id); # 608 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Tpublic.h" herr_t H5Tcommit1(hid_t loc_id, const char *name, hid_t type_id); hid_t H5Topen1(hid_t loc_id, const char *name); hid_t H5Tarray_create1(hid_t base_id, int ndims, const hsize_t dim[ ], const int perm[ ]); int H5Tget_array_dims1(hid_t type_id, hsize_t dims[], int perm[]); # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Lpublic.h" 2 # 64 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Lpublic.h" typedef enum { H5L_TYPE_ERROR = (-1), H5L_TYPE_HARD = 0, H5L_TYPE_SOFT = 1, H5L_TYPE_EXTERNAL = 64, H5L_TYPE_MAX = 255 } H5L_type_t; typedef struct { H5L_type_t type; hbool_t corder_valid; int64_t corder; H5T_cset_t cset; union { haddr_t address; size_t val_size; } u; } H5L_info_t; typedef herr_t (*H5L_create_func_t)(const char *link_name, hid_t loc_group, const void *lnkdata, size_t lnkdata_size, hid_t lcpl_id); typedef herr_t (*H5L_move_func_t)(const char *new_name, hid_t new_loc, const void *lnkdata, size_t lnkdata_size); typedef herr_t (*H5L_copy_func_t)(const char *new_name, hid_t new_loc, const void *lnkdata, size_t lnkdata_size); typedef hid_t (*H5L_traverse_func_t)(const char *link_name, hid_t cur_group, const void *lnkdata, size_t lnkdata_size, hid_t lapl_id); typedef herr_t (*H5L_delete_func_t)(const char *link_name, hid_t file, const void *lnkdata, size_t lnkdata_size); typedef ssize_t (*H5L_query_func_t)(const char *link_name, const void *lnkdata, size_t lnkdata_size, void *buf , size_t buf_size); typedef struct { int version; H5L_type_t id; const char *comment; H5L_create_func_t create_func; H5L_move_func_t move_func; H5L_copy_func_t copy_func; H5L_traverse_func_t trav_func; H5L_delete_func_t del_func; H5L_query_func_t query_func; } H5L_class_t; typedef herr_t (*H5L_iterate_t)(hid_t group, const char *name, const H5L_info_t *info, void *op_data); typedef herr_t (*H5L_elink_traverse_t)(const char *parent_file_name, const char *parent_group_name, const char *child_file_name, const char *child_object_name, unsigned *acc_flags, hid_t fapl_id, void *op_data); # 148 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Lpublic.h" herr_t H5Lmove(hid_t src_loc, const char *src_name, hid_t dst_loc, const char *dst_name, hid_t lcpl_id, hid_t lapl_id); herr_t H5Lcopy(hid_t src_loc, const char *src_name, hid_t dst_loc, const char *dst_name, hid_t lcpl_id, hid_t lapl_id); herr_t H5Lcreate_hard(hid_t cur_loc, const char *cur_name, hid_t dst_loc, const char *dst_name, hid_t lcpl_id, hid_t lapl_id); herr_t H5Lcreate_soft(const char *link_target, hid_t link_loc_id, const char *link_name, hid_t lcpl_id, hid_t lapl_id); herr_t H5Ldelete(hid_t loc_id, const char *name, hid_t lapl_id); herr_t H5Ldelete_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, hid_t lapl_id); herr_t H5Lget_val(hid_t loc_id, const char *name, void *buf , size_t size, hid_t lapl_id); herr_t H5Lget_val_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, void *buf , size_t size, hid_t lapl_id); htri_t H5Lexists(hid_t loc_id, const char *name, hid_t lapl_id); herr_t H5Lget_info(hid_t loc_id, const char *name, H5L_info_t *linfo , hid_t lapl_id); herr_t H5Lget_info_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, H5L_info_t *linfo , hid_t lapl_id); ssize_t H5Lget_name_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, char *name , size_t size, hid_t lapl_id); herr_t H5Literate(hid_t grp_id, H5_index_t idx_type, H5_iter_order_t order, hsize_t *idx, H5L_iterate_t op, void *op_data); herr_t H5Literate_by_name(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t *idx, H5L_iterate_t op, void *op_data, hid_t lapl_id); herr_t H5Lvisit(hid_t grp_id, H5_index_t idx_type, H5_iter_order_t order, H5L_iterate_t op, void *op_data); herr_t H5Lvisit_by_name(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, H5L_iterate_t op, void *op_data, hid_t lapl_id); herr_t H5Lcreate_ud(hid_t link_loc_id, const char *link_name, H5L_type_t link_type, const void *udata, size_t udata_size, hid_t lcpl_id, hid_t lapl_id); herr_t H5Lregister(const H5L_class_t *cls); herr_t H5Lunregister(H5L_type_t id); htri_t H5Lis_registered(H5L_type_t id); herr_t H5Lunpack_elink_val(const void *ext_linkval , size_t link_size, unsigned *flags, const char **filename , const char **obj_path ); herr_t H5Lcreate_external(const char *file_name, const char *obj_name, hid_t link_loc_id, const char *link_name, hid_t lcpl_id, hid_t lapl_id); # 34 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Opublic.h" 2 # 83 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Opublic.h" typedef enum H5O_type_t { H5O_TYPE_UNKNOWN = -1, H5O_TYPE_GROUP, H5O_TYPE_DATASET, H5O_TYPE_NAMED_DATATYPE, H5O_TYPE_NTYPES } H5O_type_t; typedef struct H5O_hdr_info_t { unsigned version; unsigned nmesgs; unsigned nchunks; unsigned flags; struct { hsize_t total; hsize_t meta; hsize_t mesg; hsize_t free; } space; struct { uint64_t present; uint64_t shared; } mesg; } H5O_hdr_info_t; typedef struct H5O_info_t { unsigned long fileno; haddr_t addr; H5O_type_t type; unsigned rc; time_t atime; time_t mtime; time_t ctime; time_t btime; hsize_t num_attrs; H5O_hdr_info_t hdr; struct { H5_ih_info_t obj; H5_ih_info_t attr; } meta_size; } H5O_info_t; typedef uint32_t H5O_msg_crt_idx_t; typedef herr_t (*H5O_iterate_t)(hid_t obj, const char *name, const H5O_info_t *info, void *op_data); typedef enum H5O_mcdt_search_ret_t { H5O_MCDT_SEARCH_ERROR = -1, H5O_MCDT_SEARCH_CONT, H5O_MCDT_SEARCH_STOP } H5O_mcdt_search_ret_t; typedef H5O_mcdt_search_ret_t (*H5O_mcdt_search_cb_t)(void *op_data); # 156 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Opublic.h" hid_t H5Oopen(hid_t loc_id, const char *name, hid_t lapl_id); hid_t H5Oopen_by_addr(hid_t loc_id, haddr_t addr); hid_t H5Oopen_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, hid_t lapl_id); htri_t H5Oexists_by_name(hid_t loc_id, const char *name, hid_t lapl_id); herr_t H5Oget_info(hid_t loc_id, H5O_info_t *oinfo); herr_t H5Oget_info_by_name(hid_t loc_id, const char *name, H5O_info_t *oinfo, hid_t lapl_id); herr_t H5Oget_info_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, H5O_info_t *oinfo, hid_t lapl_id); herr_t H5Olink(hid_t obj_id, hid_t new_loc_id, const char *new_name, hid_t lcpl_id, hid_t lapl_id); herr_t H5Oincr_refcount(hid_t object_id); herr_t H5Odecr_refcount(hid_t object_id); herr_t H5Ocopy(hid_t src_loc_id, const char *src_name, hid_t dst_loc_id, const char *dst_name, hid_t ocpypl_id, hid_t lcpl_id); herr_t H5Oset_comment(hid_t obj_id, const char *comment); herr_t H5Oset_comment_by_name(hid_t loc_id, const char *name, const char *comment, hid_t lapl_id); ssize_t H5Oget_comment(hid_t obj_id, char *comment, size_t bufsize); ssize_t H5Oget_comment_by_name(hid_t loc_id, const char *name, char *comment, size_t bufsize, hid_t lapl_id); herr_t H5Ovisit(hid_t obj_id, H5_index_t idx_type, H5_iter_order_t order, H5O_iterate_t op, void *op_data); herr_t H5Ovisit_by_name(hid_t loc_id, const char *obj_name, H5_index_t idx_type, H5_iter_order_t order, H5O_iterate_t op, void *op_data, hid_t lapl_id); herr_t H5Oclose(hid_t object_id); # 197 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Opublic.h" typedef struct H5O_stat_t { hsize_t size; hsize_t free; unsigned nmesgs; unsigned nchunks; } H5O_stat_t; # 25 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Apublic.h" 2 typedef struct { hbool_t corder_valid; H5O_msg_crt_idx_t corder; H5T_cset_t cset; hsize_t data_size; } H5A_info_t; typedef herr_t (*H5A_operator2_t)(hid_t location_id , const char *attr_name , const H5A_info_t *ainfo , void *op_data ); hid_t H5Acreate2(hid_t loc_id, const char *attr_name, hid_t type_id, hid_t space_id, hid_t acpl_id, hid_t aapl_id); hid_t H5Acreate_by_name(hid_t loc_id, const char *obj_name, const char *attr_name, hid_t type_id, hid_t space_id, hid_t acpl_id, hid_t aapl_id, hid_t lapl_id); hid_t H5Aopen(hid_t obj_id, const char *attr_name, hid_t aapl_id); hid_t H5Aopen_by_name(hid_t loc_id, const char *obj_name, const char *attr_name, hid_t aapl_id, hid_t lapl_id); hid_t H5Aopen_by_idx(hid_t loc_id, const char *obj_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, hid_t aapl_id, hid_t lapl_id); herr_t H5Awrite(hid_t attr_id, hid_t type_id, const void *buf); herr_t H5Aread(hid_t attr_id, hid_t type_id, void *buf); herr_t H5Aclose(hid_t attr_id); hid_t H5Aget_space(hid_t attr_id); hid_t H5Aget_type(hid_t attr_id); hid_t H5Aget_create_plist(hid_t attr_id); ssize_t H5Aget_name(hid_t attr_id, size_t buf_size, char *buf); ssize_t H5Aget_name_by_idx(hid_t loc_id, const char *obj_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, char *name , size_t size, hid_t lapl_id); hsize_t H5Aget_storage_size(hid_t attr_id); herr_t H5Aget_info(hid_t attr_id, H5A_info_t *ainfo ); herr_t H5Aget_info_by_name(hid_t loc_id, const char *obj_name, const char *attr_name, H5A_info_t *ainfo , hid_t lapl_id); herr_t H5Aget_info_by_idx(hid_t loc_id, const char *obj_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, H5A_info_t *ainfo , hid_t lapl_id); herr_t H5Arename(hid_t loc_id, const char *old_name, const char *new_name); herr_t H5Arename_by_name(hid_t loc_id, const char *obj_name, const char *old_attr_name, const char *new_attr_name, hid_t lapl_id); herr_t H5Aiterate2(hid_t loc_id, H5_index_t idx_type, H5_iter_order_t order, hsize_t *idx, H5A_operator2_t op, void *op_data); herr_t H5Aiterate_by_name(hid_t loc_id, const char *obj_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t *idx, H5A_operator2_t op, void *op_data, hid_t lapd_id); herr_t H5Adelete(hid_t loc_id, const char *name); herr_t H5Adelete_by_name(hid_t loc_id, const char *obj_name, const char *attr_name, hid_t lapl_id); herr_t H5Adelete_by_idx(hid_t loc_id, const char *obj_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, hid_t lapl_id); htri_t H5Aexists(hid_t obj_id, const char *attr_name); htri_t H5Aexists_by_name(hid_t obj_id, const char *obj_name, const char *attr_name, hid_t lapl_id); # 100 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Apublic.h" typedef herr_t (*H5A_operator1_t)(hid_t location_id , const char *attr_name , void *operator_data ); hid_t H5Acreate1(hid_t loc_id, const char *name, hid_t type_id, hid_t space_id, hid_t acpl_id); hid_t H5Aopen_name(hid_t loc_id, const char *name); hid_t H5Aopen_idx(hid_t loc_id, unsigned idx); int H5Aget_num_attrs(hid_t loc_id); herr_t H5Aiterate1(hid_t loc_id, unsigned *attr_num, H5A_operator1_t op, void *op_data); # 26 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5ACpublic.h" 1 # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5ACpublic.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Cpublic.h" 1 # 38 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Cpublic.h" enum H5C_cache_incr_mode { H5C_incr__off, H5C_incr__threshold }; enum H5C_cache_flash_incr_mode { H5C_flash_incr__off, H5C_flash_incr__add_space }; enum H5C_cache_decr_mode { H5C_decr__off, H5C_decr__threshold, H5C_decr__age_out, H5C_decr__age_out_with_threshold }; # 34 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5ACpublic.h" 2 # 443 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5ACpublic.h" typedef struct H5AC_cache_config_t { int version; hbool_t rpt_fcn_enabled; hbool_t open_trace_file; hbool_t close_trace_file; char trace_file_name[1024 + 1]; hbool_t evictions_enabled; hbool_t set_initial_size; size_t initial_size; double min_clean_fraction; size_t max_size; size_t min_size; long int epoch_length; enum H5C_cache_incr_mode incr_mode; double lower_hr_threshold; double increment; hbool_t apply_max_increment; size_t max_increment; enum H5C_cache_flash_incr_mode flash_incr_mode; double flash_multiple; double flash_threshold; enum H5C_cache_decr_mode decr_mode; double upper_hr_threshold; double decrement; hbool_t apply_max_decrement; size_t max_decrement; int epochs_before_eviction; hbool_t apply_empty_reserve; double empty_reserve; int dirty_bytes_threshold; int metadata_write_strategy; } H5AC_cache_config_t; # 27 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Dpublic.h" 1 # 48 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Dpublic.h" typedef enum H5D_layout_t { H5D_LAYOUT_ERROR = -1, H5D_COMPACT = 0, H5D_CONTIGUOUS = 1, H5D_CHUNKED = 2, H5D_NLAYOUTS = 3 } H5D_layout_t; typedef enum H5D_chunk_index_t { H5D_CHUNK_BTREE = 0 } H5D_chunk_index_t; typedef enum H5D_alloc_time_t { H5D_ALLOC_TIME_ERROR = -1, H5D_ALLOC_TIME_DEFAULT = 0, H5D_ALLOC_TIME_EARLY = 1, H5D_ALLOC_TIME_LATE = 2, H5D_ALLOC_TIME_INCR = 3 } H5D_alloc_time_t; typedef enum H5D_space_status_t { H5D_SPACE_STATUS_ERROR = -1, H5D_SPACE_STATUS_NOT_ALLOCATED = 0, H5D_SPACE_STATUS_PART_ALLOCATED = 1, H5D_SPACE_STATUS_ALLOCATED = 2 } H5D_space_status_t; typedef enum H5D_fill_time_t { H5D_FILL_TIME_ERROR = -1, H5D_FILL_TIME_ALLOC = 0, H5D_FILL_TIME_NEVER = 1, H5D_FILL_TIME_IFSET = 2 } H5D_fill_time_t; typedef enum H5D_fill_value_t { H5D_FILL_VALUE_ERROR =-1, H5D_FILL_VALUE_UNDEFINED =0, H5D_FILL_VALUE_DEFAULT =1, H5D_FILL_VALUE_USER_DEFINED =2 } H5D_fill_value_t; # 107 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Dpublic.h" typedef herr_t (*H5D_operator_t)(void *elem, hid_t type_id, unsigned ndim, const hsize_t *point, void *operator_data); typedef herr_t (*H5D_scatter_func_t)(const void **src_buf , size_t *src_buf_bytes_used , void *op_data); typedef herr_t (*H5D_gather_func_t)(const void *dst_buf, size_t dst_buf_bytes_used, void *op_data); hid_t H5Dcreate2(hid_t loc_id, const char *name, hid_t type_id, hid_t space_id, hid_t lcpl_id, hid_t dcpl_id, hid_t dapl_id); hid_t H5Dcreate_anon(hid_t file_id, hid_t type_id, hid_t space_id, hid_t plist_id, hid_t dapl_id); hid_t H5Dopen2(hid_t file_id, const char *name, hid_t dapl_id); herr_t H5Dclose(hid_t dset_id); hid_t H5Dget_space(hid_t dset_id); herr_t H5Dget_space_status(hid_t dset_id, H5D_space_status_t *allocation); hid_t H5Dget_type(hid_t dset_id); hid_t H5Dget_create_plist(hid_t dset_id); hid_t H5Dget_access_plist(hid_t dset_id); hsize_t H5Dget_storage_size(hid_t dset_id); haddr_t H5Dget_offset(hid_t dset_id); herr_t H5Dread(hid_t dset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t plist_id, void *buf ); herr_t H5Dwrite(hid_t dset_id, hid_t mem_type_id, hid_t mem_space_id, hid_t file_space_id, hid_t plist_id, const void *buf); herr_t H5Diterate(void *buf, hid_t type_id, hid_t space_id, H5D_operator_t op, void *operator_data); herr_t H5Dvlen_reclaim(hid_t type_id, hid_t space_id, hid_t plist_id, void *buf); herr_t H5Dvlen_get_buf_size(hid_t dataset_id, hid_t type_id, hid_t space_id, hsize_t *size); herr_t H5Dfill(const void *fill, hid_t fill_type, void *buf, hid_t buf_type, hid_t space); herr_t H5Dset_extent(hid_t dset_id, const hsize_t size[]); herr_t H5Dscatter(H5D_scatter_func_t op, void *op_data, hid_t type_id, hid_t dst_space_id, void *dst_buf); herr_t H5Dgather(hid_t src_space_id, const void *src_buf, hid_t type_id, size_t dst_buf_size, void *dst_buf, H5D_gather_func_t op, void *op_data); herr_t H5Ddebug(hid_t dset_id); # 162 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Dpublic.h" hid_t H5Dcreate1(hid_t file_id, const char *name, hid_t type_id, hid_t space_id, hid_t dcpl_id); hid_t H5Dopen1(hid_t file_id, const char *name); herr_t H5Dextend(hid_t dset_id, const hsize_t size[]); # 28 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" 1 # 22 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" # 1 "/usr/include/stdio.h" 1 3 4 # 30 "/usr/include/stdio.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 35 "/usr/include/stdio.h" 2 3 4 # 45 "/usr/include/stdio.h" 3 4 struct _IO_FILE; typedef struct _IO_FILE FILE; # 65 "/usr/include/stdio.h" 3 4 typedef struct _IO_FILE __FILE; # 75 "/usr/include/stdio.h" 3 4 # 1 "/usr/include/libio.h" 1 3 4 # 32 "/usr/include/libio.h" 3 4 # 1 "/usr/include/_G_config.h" 1 3 4 # 15 "/usr/include/_G_config.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 16 "/usr/include/_G_config.h" 2 3 4 # 1 "/usr/include/wchar.h" 1 3 4 # 83 "/usr/include/wchar.h" 3 4 typedef struct { int __count; union { unsigned int __wch; char __wchb[4]; } __value; } __mbstate_t; # 21 "/usr/include/_G_config.h" 2 3 4 typedef struct { __off_t __pos; __mbstate_t __state; } _G_fpos_t; typedef struct { __off64_t __pos; __mbstate_t __state; } _G_fpos64_t; # 53 "/usr/include/_G_config.h" 3 4 typedef int _G_int16_t __attribute__ ((__mode__ (__HI__))); typedef int _G_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int _G_uint16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int _G_uint32_t __attribute__ ((__mode__ (__SI__))); # 33 "/usr/include/libio.h" 2 3 4 # 53 "/usr/include/libio.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 1 3 4 # 40 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 3 4 typedef __builtin_va_list __gnuc_va_list; # 54 "/usr/include/libio.h" 2 3 4 # 170 "/usr/include/libio.h" 3 4 struct _IO_jump_t; struct _IO_FILE; # 180 "/usr/include/libio.h" 3 4 typedef void _IO_lock_t; struct _IO_marker { struct _IO_marker *_next; struct _IO_FILE *_sbuf; int _pos; # 203 "/usr/include/libio.h" 3 4 }; enum __codecvt_result { __codecvt_ok, __codecvt_partial, __codecvt_error, __codecvt_noconv }; # 271 "/usr/include/libio.h" 3 4 struct _IO_FILE { int _flags; char* _IO_read_ptr; char* _IO_read_end; char* _IO_read_base; char* _IO_write_base; char* _IO_write_ptr; char* _IO_write_end; char* _IO_buf_base; char* _IO_buf_end; char *_IO_save_base; char *_IO_backup_base; char *_IO_save_end; struct _IO_marker *_markers; struct _IO_FILE *_chain; int _fileno; int _flags2; __off_t _old_offset; unsigned short _cur_column; signed char _vtable_offset; char _shortbuf[1]; _IO_lock_t *_lock; # 319 "/usr/include/libio.h" 3 4 __off64_t _offset; # 328 "/usr/include/libio.h" 3 4 void *__pad1; void *__pad2; void *__pad3; void *__pad4; size_t __pad5; int _mode; char _unused2[15 * sizeof (int) - 4 * sizeof (void *) - sizeof (size_t)]; }; typedef struct _IO_FILE _IO_FILE; struct _IO_FILE_plus; extern struct _IO_FILE_plus _IO_2_1_stdin_; extern struct _IO_FILE_plus _IO_2_1_stdout_; extern struct _IO_FILE_plus _IO_2_1_stderr_; # 364 "/usr/include/libio.h" 3 4 typedef __ssize_t __io_read_fn (void *__cookie, char *__buf, size_t __nbytes); typedef __ssize_t __io_write_fn (void *__cookie, __const char *__buf, size_t __n); typedef int __io_seek_fn (void *__cookie, __off64_t *__pos, int __w); typedef int __io_close_fn (void *__cookie); # 416 "/usr/include/libio.h" 3 4 extern int __underflow (_IO_FILE *); extern int __uflow (_IO_FILE *); extern int __overflow (_IO_FILE *, int); # 460 "/usr/include/libio.h" 3 4 extern int _IO_getc (_IO_FILE *__fp); extern int _IO_putc (int __c, _IO_FILE *__fp); extern int _IO_feof (_IO_FILE *__fp) __attribute__ ((__nothrow__)); extern int _IO_ferror (_IO_FILE *__fp) __attribute__ ((__nothrow__)); extern int _IO_peekc_locked (_IO_FILE *__fp); extern void _IO_flockfile (_IO_FILE *) __attribute__ ((__nothrow__)); extern void _IO_funlockfile (_IO_FILE *) __attribute__ ((__nothrow__)); extern int _IO_ftrylockfile (_IO_FILE *) __attribute__ ((__nothrow__)); # 490 "/usr/include/libio.h" 3 4 extern int _IO_vfscanf (_IO_FILE * __restrict, const char * __restrict, __gnuc_va_list, int *__restrict); extern int _IO_vfprintf (_IO_FILE *__restrict, const char *__restrict, __gnuc_va_list); extern __ssize_t _IO_padn (_IO_FILE *, int, __ssize_t); extern size_t _IO_sgetn (_IO_FILE *, void *, size_t); extern __off64_t _IO_seekoff (_IO_FILE *, __off64_t, int, int); extern __off64_t _IO_seekpos (_IO_FILE *, __off64_t, int); extern void _IO_free_backup_area (_IO_FILE *) __attribute__ ((__nothrow__)); # 76 "/usr/include/stdio.h" 2 3 4 typedef __gnuc_va_list va_list; # 109 "/usr/include/stdio.h" 3 4 typedef _G_fpos_t fpos_t; # 161 "/usr/include/stdio.h" 3 4 # 1 "/usr/include/bits/stdio_lim.h" 1 3 4 # 162 "/usr/include/stdio.h" 2 3 4 extern struct _IO_FILE *stdin; extern struct _IO_FILE *stdout; extern struct _IO_FILE *stderr; extern int remove (__const char *__filename) __attribute__ ((__nothrow__)); extern int rename (__const char *__old, __const char *__new) __attribute__ ((__nothrow__)); extern int renameat (int __oldfd, __const char *__old, int __newfd, __const char *__new) __attribute__ ((__nothrow__)); extern FILE *tmpfile (void) ; # 208 "/usr/include/stdio.h" 3 4 extern char *tmpnam (char *__s) __attribute__ ((__nothrow__)) ; extern char *tmpnam_r (char *__s) __attribute__ ((__nothrow__)) ; # 226 "/usr/include/stdio.h" 3 4 extern char *tempnam (__const char *__dir, __const char *__pfx) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int fclose (FILE *__stream); extern int fflush (FILE *__stream); # 251 "/usr/include/stdio.h" 3 4 extern int fflush_unlocked (FILE *__stream); # 265 "/usr/include/stdio.h" 3 4 extern FILE *fopen (__const char *__restrict __filename, __const char *__restrict __modes) ; extern FILE *freopen (__const char *__restrict __filename, __const char *__restrict __modes, FILE *__restrict __stream) ; # 294 "/usr/include/stdio.h" 3 4 # 305 "/usr/include/stdio.h" 3 4 extern FILE *fdopen (int __fd, __const char *__modes) __attribute__ ((__nothrow__)) ; # 318 "/usr/include/stdio.h" 3 4 extern FILE *fmemopen (void *__s, size_t __len, __const char *__modes) __attribute__ ((__nothrow__)) ; extern FILE *open_memstream (char **__bufloc, size_t *__sizeloc) __attribute__ ((__nothrow__)) ; extern void setbuf (FILE *__restrict __stream, char *__restrict __buf) __attribute__ ((__nothrow__)); extern int setvbuf (FILE *__restrict __stream, char *__restrict __buf, int __modes, size_t __n) __attribute__ ((__nothrow__)); extern void setbuffer (FILE *__restrict __stream, char *__restrict __buf, size_t __size) __attribute__ ((__nothrow__)); extern void setlinebuf (FILE *__stream) __attribute__ ((__nothrow__)); extern int fprintf (FILE *__restrict __stream, __const char *__restrict __format, ...); extern int printf (__const char *__restrict __format, ...); extern int sprintf (char *__restrict __s, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)); extern int vfprintf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg); extern int vprintf (__const char *__restrict __format, __gnuc_va_list __arg); extern int vsprintf (char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)); extern int snprintf (char *__restrict __s, size_t __maxlen, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__printf__, 3, 4))); extern int vsnprintf (char *__restrict __s, size_t __maxlen, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__printf__, 3, 0))); # 416 "/usr/include/stdio.h" 3 4 extern int vdprintf (int __fd, __const char *__restrict __fmt, __gnuc_va_list __arg) __attribute__ ((__format__ (__printf__, 2, 0))); extern int dprintf (int __fd, __const char *__restrict __fmt, ...) __attribute__ ((__format__ (__printf__, 2, 3))); extern int fscanf (FILE *__restrict __stream, __const char *__restrict __format, ...) ; extern int scanf (__const char *__restrict __format, ...) ; extern int sscanf (__const char *__restrict __s, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)); # 447 "/usr/include/stdio.h" 3 4 extern int fscanf (FILE *__restrict __stream, __const char *__restrict __format, ...) __asm__ ("" "__isoc99_fscanf") ; extern int scanf (__const char *__restrict __format, ...) __asm__ ("" "__isoc99_scanf") ; extern int sscanf (__const char *__restrict __s, __const char *__restrict __format, ...) __asm__ ("" "__isoc99_sscanf") __attribute__ ((__nothrow__)); # 467 "/usr/include/stdio.h" 3 4 extern int vfscanf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__format__ (__scanf__, 2, 0))) ; extern int vscanf (__const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__format__ (__scanf__, 1, 0))) ; extern int vsscanf (__const char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__scanf__, 2, 0))); # 498 "/usr/include/stdio.h" 3 4 extern int vfscanf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vfscanf") __attribute__ ((__format__ (__scanf__, 2, 0))) ; extern int vscanf (__const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vscanf") __attribute__ ((__format__ (__scanf__, 1, 0))) ; extern int vsscanf (__const char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vsscanf") __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__scanf__, 2, 0))); # 526 "/usr/include/stdio.h" 3 4 extern int fgetc (FILE *__stream); extern int getc (FILE *__stream); extern int getchar (void); # 554 "/usr/include/stdio.h" 3 4 extern int getc_unlocked (FILE *__stream); extern int getchar_unlocked (void); # 565 "/usr/include/stdio.h" 3 4 extern int fgetc_unlocked (FILE *__stream); extern int fputc (int __c, FILE *__stream); extern int putc (int __c, FILE *__stream); extern int putchar (int __c); # 598 "/usr/include/stdio.h" 3 4 extern int fputc_unlocked (int __c, FILE *__stream); extern int putc_unlocked (int __c, FILE *__stream); extern int putchar_unlocked (int __c); extern int getw (FILE *__stream); extern int putw (int __w, FILE *__stream); extern char *fgets (char *__restrict __s, int __n, FILE *__restrict __stream) ; extern char *gets (char *__s) ; # 660 "/usr/include/stdio.h" 3 4 extern __ssize_t __getdelim (char **__restrict __lineptr, size_t *__restrict __n, int __delimiter, FILE *__restrict __stream) ; extern __ssize_t getdelim (char **__restrict __lineptr, size_t *__restrict __n, int __delimiter, FILE *__restrict __stream) ; extern __ssize_t getline (char **__restrict __lineptr, size_t *__restrict __n, FILE *__restrict __stream) ; extern int fputs (__const char *__restrict __s, FILE *__restrict __stream); extern int puts (__const char *__s); extern int ungetc (int __c, FILE *__stream); extern size_t fread (void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern size_t fwrite (__const void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __s) ; # 732 "/usr/include/stdio.h" 3 4 extern size_t fread_unlocked (void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern size_t fwrite_unlocked (__const void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern int fseek (FILE *__stream, long int __off, int __whence); extern long int ftell (FILE *__stream) ; extern void rewind (FILE *__stream); # 768 "/usr/include/stdio.h" 3 4 extern int fseeko (FILE *__stream, __off_t __off, int __whence); extern __off_t ftello (FILE *__stream) ; # 787 "/usr/include/stdio.h" 3 4 extern int fgetpos (FILE *__restrict __stream, fpos_t *__restrict __pos); extern int fsetpos (FILE *__stream, __const fpos_t *__pos); # 810 "/usr/include/stdio.h" 3 4 # 819 "/usr/include/stdio.h" 3 4 extern void clearerr (FILE *__stream) __attribute__ ((__nothrow__)); extern int feof (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int ferror (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void clearerr_unlocked (FILE *__stream) __attribute__ ((__nothrow__)); extern int feof_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int ferror_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void perror (__const char *__s); # 1 "/usr/include/bits/sys_errlist.h" 1 3 4 # 27 "/usr/include/bits/sys_errlist.h" 3 4 extern int sys_nerr; extern __const char *__const sys_errlist[]; # 849 "/usr/include/stdio.h" 2 3 4 extern int fileno (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int fileno_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; # 868 "/usr/include/stdio.h" 3 4 extern FILE *popen (__const char *__command, __const char *__modes) ; extern int pclose (FILE *__stream); extern char *ctermid (char *__s) __attribute__ ((__nothrow__)); # 908 "/usr/include/stdio.h" 3 4 extern void flockfile (FILE *__stream) __attribute__ ((__nothrow__)); extern int ftrylockfile (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void funlockfile (FILE *__stream) __attribute__ ((__nothrow__)); # 938 "/usr/include/stdio.h" 3 4 # 23 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" 2 # 32 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" typedef enum H5E_type_t { H5E_MAJOR, H5E_MINOR } H5E_type_t; typedef struct H5E_error2_t { hid_t cls_id; hid_t maj_num; hid_t min_num; unsigned line; const char *func_name; const char *file_name; const char *desc; } H5E_error2_t; # 58 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" extern hid_t H5E_ERR_CLS_g; # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" 1 # 58 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_DATASET_g; extern hid_t H5E_FUNC_g; extern hid_t H5E_STORAGE_g; extern hid_t H5E_FILE_g; extern hid_t H5E_SOHM_g; extern hid_t H5E_SYM_g; extern hid_t H5E_PLUGIN_g; extern hid_t H5E_VFL_g; extern hid_t H5E_INTERNAL_g; extern hid_t H5E_BTREE_g; extern hid_t H5E_REFERENCE_g; extern hid_t H5E_DATASPACE_g; extern hid_t H5E_RESOURCE_g; extern hid_t H5E_PLIST_g; extern hid_t H5E_LINK_g; extern hid_t H5E_DATATYPE_g; extern hid_t H5E_RS_g; extern hid_t H5E_HEAP_g; extern hid_t H5E_OHDR_g; extern hid_t H5E_ATOM_g; extern hid_t H5E_ATTR_g; extern hid_t H5E_NONE_MAJOR_g; extern hid_t H5E_IO_g; extern hid_t H5E_SLIST_g; extern hid_t H5E_EFL_g; extern hid_t H5E_TST_g; extern hid_t H5E_ARGS_g; extern hid_t H5E_ERROR_g; extern hid_t H5E_PLINE_g; extern hid_t H5E_FSPACE_g; extern hid_t H5E_CACHE_g; # 101 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_SEEKERROR_g; extern hid_t H5E_READERROR_g; extern hid_t H5E_WRITEERROR_g; extern hid_t H5E_CLOSEERROR_g; extern hid_t H5E_OVERFLOW_g; extern hid_t H5E_FCNTL_g; # 119 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_NOSPACE_g; extern hid_t H5E_CANTALLOC_g; extern hid_t H5E_CANTCOPY_g; extern hid_t H5E_CANTFREE_g; extern hid_t H5E_ALREADYEXISTS_g; extern hid_t H5E_CANTLOCK_g; extern hid_t H5E_CANTUNLOCK_g; extern hid_t H5E_CANTGC_g; extern hid_t H5E_CANTGETSIZE_g; extern hid_t H5E_OBJOPEN_g; # 137 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_CANTRESTORE_g; extern hid_t H5E_CANTCOMPUTE_g; extern hid_t H5E_CANTEXTEND_g; extern hid_t H5E_CANTATTACH_g; extern hid_t H5E_CANTUPDATE_g; extern hid_t H5E_CANTOPERATE_g; extern hid_t H5E_CANTINIT_g; extern hid_t H5E_ALREADYINIT_g; extern hid_t H5E_CANTRELEASE_g; extern hid_t H5E_CANTGET_g; extern hid_t H5E_CANTSET_g; extern hid_t H5E_DUPCLASS_g; extern hid_t H5E_SETDISALLOWED_g; extern hid_t H5E_CANTMERGE_g; extern hid_t H5E_CANTREVIVE_g; extern hid_t H5E_CANTSHRINK_g; # 180 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_LINKCOUNT_g; extern hid_t H5E_VERSION_g; extern hid_t H5E_ALIGNMENT_g; extern hid_t H5E_BADMESG_g; extern hid_t H5E_CANTDELETE_g; extern hid_t H5E_BADITER_g; extern hid_t H5E_CANTPACK_g; extern hid_t H5E_CANTRESET_g; extern hid_t H5E_CANTRENAME_g; extern hid_t H5E_SYSERRSTR_g; # 201 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_NOFILTER_g; extern hid_t H5E_CALLBACK_g; extern hid_t H5E_CANAPPLY_g; extern hid_t H5E_SETLOCAL_g; extern hid_t H5E_NOENCODER_g; extern hid_t H5E_CANTFILTER_g; extern hid_t H5E_CANTOPENOBJ_g; extern hid_t H5E_CANTCLOSEOBJ_g; extern hid_t H5E_COMPLEN_g; extern hid_t H5E_PATH_g; extern hid_t H5E_NONE_MINOR_g; extern hid_t H5E_OPENERROR_g; # 236 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_FILEEXISTS_g; extern hid_t H5E_FILEOPEN_g; extern hid_t H5E_CANTCREATE_g; extern hid_t H5E_CANTOPENFILE_g; extern hid_t H5E_CANTCLOSEFILE_g; extern hid_t H5E_NOTHDF5_g; extern hid_t H5E_BADFILE_g; extern hid_t H5E_TRUNCATED_g; extern hid_t H5E_MOUNT_g; # 253 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_BADATOM_g; extern hid_t H5E_BADGROUP_g; extern hid_t H5E_CANTREGISTER_g; extern hid_t H5E_CANTINC_g; extern hid_t H5E_CANTDEC_g; extern hid_t H5E_NOIDS_g; # 276 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_CANTFLUSH_g; extern hid_t H5E_CANTSERIALIZE_g; extern hid_t H5E_CANTLOAD_g; extern hid_t H5E_PROTECT_g; extern hid_t H5E_NOTCACHED_g; extern hid_t H5E_SYSTEM_g; extern hid_t H5E_CANTINS_g; extern hid_t H5E_CANTPROTECT_g; extern hid_t H5E_CANTUNPROTECT_g; extern hid_t H5E_CANTPIN_g; extern hid_t H5E_CANTUNPIN_g; extern hid_t H5E_CANTMARKDIRTY_g; extern hid_t H5E_CANTDIRTY_g; extern hid_t H5E_CANTEXPUNGE_g; extern hid_t H5E_CANTRESIZE_g; extern hid_t H5E_TRAVERSE_g; extern hid_t H5E_NLINKS_g; extern hid_t H5E_NOTREGISTERED_g; extern hid_t H5E_CANTMOVE_g; extern hid_t H5E_CANTSORT_g; extern hid_t H5E_MPI_g; extern hid_t H5E_MPIERRSTR_g; extern hid_t H5E_CANTRECV_g; # 319 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_CANTCLIP_g; extern hid_t H5E_CANTCOUNT_g; extern hid_t H5E_CANTSELECT_g; extern hid_t H5E_CANTNEXT_g; extern hid_t H5E_BADSELECT_g; extern hid_t H5E_CANTCOMPARE_g; extern hid_t H5E_UNINITIALIZED_g; extern hid_t H5E_UNSUPPORTED_g; extern hid_t H5E_BADTYPE_g; extern hid_t H5E_BADRANGE_g; extern hid_t H5E_BADVALUE_g; # 350 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epubgen.h" extern hid_t H5E_NOTFOUND_g; extern hid_t H5E_EXISTS_g; extern hid_t H5E_CANTENCODE_g; extern hid_t H5E_CANTDECODE_g; extern hid_t H5E_CANTSPLIT_g; extern hid_t H5E_CANTREDISTRIBUTE_g; extern hid_t H5E_CANTSWAP_g; extern hid_t H5E_CANTINSERT_g; extern hid_t H5E_CANTLIST_g; extern hid_t H5E_CANTMODIFY_g; extern hid_t H5E_CANTREMOVE_g; extern hid_t H5E_CANTCONVERT_g; extern hid_t H5E_BADSIZE_g; # 63 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" 2 # 141 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" typedef enum H5E_direction_t { H5E_WALK_UPWARD = 0, H5E_WALK_DOWNWARD = 1 } H5E_direction_t; typedef herr_t (*H5E_walk2_t)(unsigned n, const H5E_error2_t *err_desc, void *client_data); typedef herr_t (*H5E_auto2_t)(hid_t estack, void *client_data); hid_t H5Eregister_class(const char *cls_name, const char *lib_name, const char *version); herr_t H5Eunregister_class(hid_t class_id); herr_t H5Eclose_msg(hid_t err_id); hid_t H5Ecreate_msg(hid_t cls, H5E_type_t msg_type, const char *msg); hid_t H5Ecreate_stack(void); hid_t H5Eget_current_stack(void); herr_t H5Eclose_stack(hid_t stack_id); ssize_t H5Eget_class_name(hid_t class_id, char *name, size_t size); herr_t H5Eset_current_stack(hid_t err_stack_id); herr_t H5Epush2(hid_t err_stack, const char *file, const char *func, unsigned line, hid_t cls_id, hid_t maj_id, hid_t min_id, const char *msg, ...); herr_t H5Epop(hid_t err_stack, size_t count); herr_t H5Eprint2(hid_t err_stack, FILE *stream); herr_t H5Ewalk2(hid_t err_stack, H5E_direction_t direction, H5E_walk2_t func, void *client_data); herr_t H5Eget_auto2(hid_t estack_id, H5E_auto2_t *func, void **client_data); herr_t H5Eset_auto2(hid_t estack_id, H5E_auto2_t func, void *client_data); herr_t H5Eclear2(hid_t err_stack); herr_t H5Eauto_is_v2(hid_t err_stack, unsigned *is_stack); ssize_t H5Eget_msg(hid_t msg_id, H5E_type_t *type, char *msg, size_t size); ssize_t H5Eget_num(hid_t error_stack_id); # 193 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Epublic.h" typedef hid_t H5E_major_t; typedef hid_t H5E_minor_t; typedef struct H5E_error1_t { H5E_major_t maj_num; H5E_minor_t min_num; const char *func_name; const char *file_name; unsigned line; const char *desc; } H5E_error1_t; typedef herr_t (*H5E_walk1_t)(int n, H5E_error1_t *err_desc, void *client_data); typedef herr_t (*H5E_auto1_t)(void *client_data); herr_t H5Eclear1(void); herr_t H5Eget_auto1(H5E_auto1_t *func, void **client_data); herr_t H5Epush1(const char *file, const char *func, unsigned line, H5E_major_t maj, H5E_minor_t min, const char *str); herr_t H5Eprint1(FILE *stream); herr_t H5Eset_auto1(H5E_auto1_t func, void *client_data); herr_t H5Ewalk1(H5E_direction_t direction, H5E_walk1_t func, void *client_data); char *H5Eget_major(H5E_major_t maj); char *H5Eget_minor(H5E_minor_t min); # 29 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Fpublic.h" 1 # 81 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Fpublic.h" typedef enum H5F_scope_t { H5F_SCOPE_LOCAL = 0, H5F_SCOPE_GLOBAL = 1 } H5F_scope_t; # 97 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Fpublic.h" typedef enum H5F_close_degree_t { H5F_CLOSE_DEFAULT = 0, H5F_CLOSE_WEAK = 1, H5F_CLOSE_SEMI = 2, H5F_CLOSE_STRONG = 3 } H5F_close_degree_t; typedef struct H5F_info_t { hsize_t super_ext_size; struct { hsize_t hdr_size; H5_ih_info_t msgs_info; } sohm; } H5F_info_t; # 122 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Fpublic.h" typedef enum H5F_mem_t { H5FD_MEM_NOLIST = -1, H5FD_MEM_DEFAULT = 0, H5FD_MEM_SUPER = 1, H5FD_MEM_BTREE = 2, H5FD_MEM_DRAW = 3, H5FD_MEM_GHEAP = 4, H5FD_MEM_LHEAP = 5, H5FD_MEM_OHDR = 6, H5FD_MEM_NTYPES } H5F_mem_t; typedef enum H5F_libver_t { H5F_LIBVER_EARLIEST, H5F_LIBVER_LATEST } H5F_libver_t; # 156 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Fpublic.h" htri_t H5Fis_hdf5(const char *filename); hid_t H5Fcreate(const char *filename, unsigned flags, hid_t create_plist, hid_t access_plist); hid_t H5Fopen(const char *filename, unsigned flags, hid_t access_plist); hid_t H5Freopen(hid_t file_id); herr_t H5Fflush(hid_t object_id, H5F_scope_t scope); herr_t H5Fclose(hid_t file_id); hid_t H5Fget_create_plist(hid_t file_id); hid_t H5Fget_access_plist(hid_t file_id); herr_t H5Fget_intent(hid_t file_id, unsigned * intent); ssize_t H5Fget_obj_count(hid_t file_id, unsigned types); ssize_t H5Fget_obj_ids(hid_t file_id, unsigned types, size_t max_objs, hid_t *obj_id_list); herr_t H5Fget_vfd_handle(hid_t file_id, hid_t fapl, void **file_handle); herr_t H5Fmount(hid_t loc, const char *name, hid_t child, hid_t plist); herr_t H5Funmount(hid_t loc, const char *name); hssize_t H5Fget_freespace(hid_t file_id); herr_t H5Fget_filesize(hid_t file_id, hsize_t *size); ssize_t H5Fget_file_image(hid_t file_id, void * buf_ptr, size_t buf_len); herr_t H5Fget_mdc_config(hid_t file_id, H5AC_cache_config_t * config_ptr); herr_t H5Fset_mdc_config(hid_t file_id, H5AC_cache_config_t * config_ptr); herr_t H5Fget_mdc_hit_rate(hid_t file_id, double * hit_rate_ptr); herr_t H5Fget_mdc_size(hid_t file_id, size_t * max_size_ptr, size_t * min_clean_size_ptr, size_t * cur_size_ptr, int * cur_num_entries_ptr); herr_t H5Freset_mdc_hit_rate_stats(hid_t file_id); ssize_t H5Fget_name(hid_t obj_id, char *name, size_t size); herr_t H5Fget_info(hid_t obj_id, H5F_info_t *bh_info); herr_t H5Fclear_elink_file_cache(hid_t file_id); # 30 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDpublic.h" 1 # 30 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDpublic.h" typedef enum H5F_mem_t H5FD_mem_t; # 206 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDpublic.h" typedef struct H5FD_t H5FD_t; typedef struct H5FD_class_t { const char *name; haddr_t maxaddr; H5F_close_degree_t fc_degree; hsize_t (*sb_size)(H5FD_t *file); herr_t (*sb_encode)(H5FD_t *file, char *name , unsigned char *p ); herr_t (*sb_decode)(H5FD_t *f, const char *name, const unsigned char *p); size_t fapl_size; void * (*fapl_get)(H5FD_t *file); void * (*fapl_copy)(const void *fapl); herr_t (*fapl_free)(void *fapl); size_t dxpl_size; void * (*dxpl_copy)(const void *dxpl); herr_t (*dxpl_free)(void *dxpl); H5FD_t *(*open)(const char *name, unsigned flags, hid_t fapl, haddr_t maxaddr); herr_t (*close)(H5FD_t *file); int (*cmp)(const H5FD_t *f1, const H5FD_t *f2); herr_t (*query)(const H5FD_t *f1, unsigned long *flags); herr_t (*get_type_map)(const H5FD_t *file, H5FD_mem_t *type_map); haddr_t (*alloc)(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, hsize_t size); herr_t (*free)(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, hsize_t size); haddr_t (*get_eoa)(const H5FD_t *file, H5FD_mem_t type); herr_t (*set_eoa)(H5FD_t *file, H5FD_mem_t type, haddr_t addr); haddr_t (*get_eof)(const H5FD_t *file); herr_t (*get_handle)(H5FD_t *file, hid_t fapl, void**file_handle); herr_t (*read)(H5FD_t *file, H5FD_mem_t type, hid_t dxpl, haddr_t addr, size_t size, void *buffer); herr_t (*write)(H5FD_t *file, H5FD_mem_t type, hid_t dxpl, haddr_t addr, size_t size, const void *buffer); herr_t (*flush)(H5FD_t *file, hid_t dxpl_id, unsigned closing); herr_t (*truncate)(H5FD_t *file, hid_t dxpl_id, hbool_t closing); herr_t (*lock)(H5FD_t *file, unsigned char *oid, unsigned lock_type, hbool_t last); herr_t (*unlock)(H5FD_t *file, unsigned char *oid, hbool_t last); H5FD_mem_t fl_map[H5FD_MEM_NTYPES]; } H5FD_class_t; typedef struct H5FD_free_t { haddr_t addr; hsize_t size; struct H5FD_free_t *next; } H5FD_free_t; struct H5FD_t { hid_t driver_id; const H5FD_class_t *cls; unsigned long fileno; unsigned long feature_flags; haddr_t maxaddr; haddr_t base_addr; hsize_t threshold; hsize_t alignment; }; typedef enum { H5FD_FILE_IMAGE_OP_NO_OP, H5FD_FILE_IMAGE_OP_PROPERTY_LIST_SET, H5FD_FILE_IMAGE_OP_PROPERTY_LIST_COPY, H5FD_FILE_IMAGE_OP_PROPERTY_LIST_GET, H5FD_FILE_IMAGE_OP_PROPERTY_LIST_CLOSE, H5FD_FILE_IMAGE_OP_FILE_OPEN, H5FD_FILE_IMAGE_OP_FILE_RESIZE, H5FD_FILE_IMAGE_OP_FILE_CLOSE } H5FD_file_image_op_t; typedef struct { void *(*image_malloc)(size_t size, H5FD_file_image_op_t file_image_op, void *udata); void *(*image_memcpy)(void *dest, const void *src, size_t size, H5FD_file_image_op_t file_image_op, void *udata); void *(*image_realloc)(void *ptr, size_t size, H5FD_file_image_op_t file_image_op, void *udata); herr_t (*image_free)(void *ptr, H5FD_file_image_op_t file_image_op, void *udata); void *(*udata_copy)(void *udata); herr_t (*udata_free)(void *udata); void *udata; } H5FD_file_image_callbacks_t; hid_t H5FDregister(const H5FD_class_t *cls); herr_t H5FDunregister(hid_t driver_id); H5FD_t *H5FDopen(const char *name, unsigned flags, hid_t fapl_id, haddr_t maxaddr); herr_t H5FDclose(H5FD_t *file); int H5FDcmp(const H5FD_t *f1, const H5FD_t *f2); int H5FDquery(const H5FD_t *f, unsigned long *flags); haddr_t H5FDalloc(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, hsize_t size); herr_t H5FDfree(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, hsize_t size); haddr_t H5FDget_eoa(H5FD_t *file, H5FD_mem_t type); herr_t H5FDset_eoa(H5FD_t *file, H5FD_mem_t type, haddr_t eoa); haddr_t H5FDget_eof(H5FD_t *file); herr_t H5FDget_vfd_handle(H5FD_t *file, hid_t fapl, void**file_handle); herr_t H5FDread(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, size_t size, void *buf ); herr_t H5FDwrite(H5FD_t *file, H5FD_mem_t type, hid_t dxpl_id, haddr_t addr, size_t size, const void *buf); herr_t H5FDflush(H5FD_t *file, hid_t dxpl_id, unsigned closing); herr_t H5FDtruncate(H5FD_t *file, hid_t dxpl_id, hbool_t closing); # 31 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Gpublic.h" 1 # 51 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Gpublic.h" typedef enum H5G_storage_type_t { H5G_STORAGE_TYPE_UNKNOWN = -1, H5G_STORAGE_TYPE_SYMBOL_TABLE, H5G_STORAGE_TYPE_COMPACT, H5G_STORAGE_TYPE_DENSE } H5G_storage_type_t; typedef struct H5G_info_t { H5G_storage_type_t storage_type; hsize_t nlinks; int64_t max_corder; hbool_t mounted; } H5G_info_t; # 75 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Gpublic.h" hid_t H5Gcreate2(hid_t loc_id, const char *name, hid_t lcpl_id, hid_t gcpl_id, hid_t gapl_id); hid_t H5Gcreate_anon(hid_t loc_id, hid_t gcpl_id, hid_t gapl_id); hid_t H5Gopen2(hid_t loc_id, const char *name, hid_t gapl_id); hid_t H5Gget_create_plist(hid_t group_id); herr_t H5Gget_info(hid_t loc_id, H5G_info_t *ginfo); herr_t H5Gget_info_by_name(hid_t loc_id, const char *name, H5G_info_t *ginfo, hid_t lapl_id); herr_t H5Gget_info_by_idx(hid_t loc_id, const char *group_name, H5_index_t idx_type, H5_iter_order_t order, hsize_t n, H5G_info_t *ginfo, hid_t lapl_id); herr_t H5Gclose(hid_t group_id); # 119 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Gpublic.h" typedef enum H5G_obj_t { H5G_UNKNOWN = -1, H5G_GROUP, H5G_DATASET, H5G_TYPE, H5G_LINK, H5G_UDLINK, H5G_RESERVED_5, H5G_RESERVED_6, H5G_RESERVED_7 } H5G_obj_t; typedef herr_t (*H5G_iterate_t)(hid_t group, const char *name, void *op_data); typedef struct H5G_stat_t { unsigned long fileno[2]; unsigned long objno[2]; unsigned nlink; H5G_obj_t type; time_t mtime; size_t linklen; H5O_stat_t ohdr; } H5G_stat_t; hid_t H5Gcreate1(hid_t loc_id, const char *name, size_t size_hint); hid_t H5Gopen1(hid_t loc_id, const char *name); herr_t H5Glink(hid_t cur_loc_id, H5L_type_t type, const char *cur_name, const char *new_name); herr_t H5Glink2(hid_t cur_loc_id, const char *cur_name, H5L_type_t type, hid_t new_loc_id, const char *new_name); herr_t H5Gmove(hid_t src_loc_id, const char *src_name, const char *dst_name); herr_t H5Gmove2(hid_t src_loc_id, const char *src_name, hid_t dst_loc_id, const char *dst_name); herr_t H5Gunlink(hid_t loc_id, const char *name); herr_t H5Gget_linkval(hid_t loc_id, const char *name, size_t size, char *buf ); herr_t H5Gset_comment(hid_t loc_id, const char *name, const char *comment); int H5Gget_comment(hid_t loc_id, const char *name, size_t bufsize, char *buf); herr_t H5Giterate(hid_t loc_id, const char *name, int *idx, H5G_iterate_t op, void *op_data); herr_t H5Gget_num_objs(hid_t loc_id, hsize_t *num_objs); herr_t H5Gget_objinfo(hid_t loc_id, const char *name, hbool_t follow_link, H5G_stat_t *statbuf ); ssize_t H5Gget_objname_by_idx(hid_t loc_id, hsize_t idx, char* name, size_t size); H5G_obj_t H5Gget_objtype_by_idx(hid_t loc_id, hsize_t idx); # 32 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5MMpublic.h" 1 # 36 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5MMpublic.h" typedef void *(*H5MM_allocate_t)(size_t size, void *alloc_info); typedef void (*H5MM_free_t)(void *mem, void *free_info); # 35 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ppublic.h" 1 # 36 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ppublic.h" # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" 1 # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" typedef int H5Z_filter_t; # 99 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" typedef enum H5Z_SO_scale_type_t { H5Z_SO_FLOAT_DSCALE = 0, H5Z_SO_FLOAT_ESCALE = 1, H5Z_SO_INT = 2 } H5Z_SO_scale_type_t; typedef enum H5Z_EDC_t { H5Z_ERROR_EDC = -1, H5Z_DISABLE_EDC = 0, H5Z_ENABLE_EDC = 1, H5Z_NO_EDC = 2 } H5Z_EDC_t; typedef enum H5Z_cb_return_t { H5Z_CB_ERROR = -1, H5Z_CB_FAIL = 0, H5Z_CB_CONT = 1, H5Z_CB_NO = 2 } H5Z_cb_return_t; typedef H5Z_cb_return_t (*H5Z_filter_func_t)(H5Z_filter_t filter, void* buf, size_t buf_size, void* op_data); typedef struct H5Z_cb_t { H5Z_filter_func_t func; void* op_data; } H5Z_cb_t; # 162 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" typedef htri_t (*H5Z_can_apply_func_t)(hid_t dcpl_id, hid_t type_id, hid_t space_id); # 185 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" typedef herr_t (*H5Z_set_local_func_t)(hid_t dcpl_id, hid_t type_id, hid_t space_id); # 202 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" typedef size_t (*H5Z_func_t)(unsigned int flags, size_t cd_nelmts, const unsigned int cd_values[], size_t nbytes, size_t *buf_size, void **buf); typedef struct H5Z_class2_t { int version; H5Z_filter_t id; unsigned encoder_present; unsigned decoder_present; const char *name; H5Z_can_apply_func_t can_apply; H5Z_set_local_func_t set_local; H5Z_func_t filter; } H5Z_class2_t; herr_t H5Zregister(const void *cls); herr_t H5Zunregister(H5Z_filter_t id); htri_t H5Zfilter_avail(H5Z_filter_t id); herr_t H5Zget_filter_info(H5Z_filter_t filter, unsigned int *filter_config_flags); # 236 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Zpublic.h" typedef struct H5Z_class1_t { H5Z_filter_t id; const char *name; H5Z_can_apply_func_t can_apply; H5Z_set_local_func_t set_local; H5Z_func_t filter; } H5Z_class1_t; # 37 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ppublic.h" 2 # 108 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ppublic.h" typedef herr_t (*H5P_cls_create_func_t)(hid_t prop_id, void *create_data); typedef herr_t (*H5P_cls_copy_func_t)(hid_t new_prop_id, hid_t old_prop_id, void *copy_data); typedef herr_t (*H5P_cls_close_func_t)(hid_t prop_id, void *close_data); typedef herr_t (*H5P_prp_cb1_t)(const char *name, size_t size, void *value); typedef herr_t (*H5P_prp_cb2_t)(hid_t prop_id, const char *name, size_t size, void *value); typedef H5P_prp_cb1_t H5P_prp_create_func_t; typedef H5P_prp_cb2_t H5P_prp_set_func_t; typedef H5P_prp_cb2_t H5P_prp_get_func_t; typedef H5P_prp_cb2_t H5P_prp_delete_func_t; typedef H5P_prp_cb1_t H5P_prp_copy_func_t; typedef int (*H5P_prp_compare_func_t)(const void *value1, const void *value2, size_t size); typedef H5P_prp_cb1_t H5P_prp_close_func_t; typedef herr_t (*H5P_iterate_t)(hid_t id, const char *name, void *iter_data); typedef enum H5D_mpio_actual_chunk_opt_mode_t { H5D_MPIO_NO_CHUNK_OPTIMIZATION = 0, H5D_MPIO_LINK_CHUNK, H5D_MPIO_MULTI_CHUNK } H5D_mpio_actual_chunk_opt_mode_t; typedef enum H5D_mpio_actual_io_mode_t { # 149 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ppublic.h" H5D_MPIO_NO_COLLECTIVE = 0x0, H5D_MPIO_CHUNK_INDEPENDENT = 0x1, H5D_MPIO_CHUNK_COLLECTIVE = 0x2, H5D_MPIO_CHUNK_MIXED = 0x1 | 0x2, H5D_MPIO_CONTIGUOUS_COLLECTIVE = 0x4 } H5D_mpio_actual_io_mode_t; typedef enum H5D_mpio_no_collective_cause_t { H5D_MPIO_COLLECTIVE = 0x00, H5D_MPIO_SET_INDEPENDENT = 0x01, H5D_MPIO_DATATYPE_CONVERSION = 0x02, H5D_MPIO_DATA_TRANSFORMS = 0x04, H5D_MPIO_MPI_OPT_TYPES_ENV_VAR_DISABLED = 0x08, H5D_MPIO_NOT_SIMPLE_OR_SCALAR_DATASPACES = 0x10, H5D_MPIO_NOT_CONTIGUOUS_OR_CHUNKED_DATASET = 0x20, H5D_MPIO_FILTERS = 0x40 } H5D_mpio_no_collective_cause_t; extern hid_t H5P_CLS_ROOT_ID_g; extern hid_t H5P_CLS_OBJECT_CREATE_ID_g; extern hid_t H5P_CLS_FILE_CREATE_ID_g; extern hid_t H5P_CLS_FILE_ACCESS_ID_g; extern hid_t H5P_CLS_DATASET_CREATE_ID_g; extern hid_t H5P_CLS_DATASET_ACCESS_ID_g; extern hid_t H5P_CLS_DATASET_XFER_ID_g; extern hid_t H5P_CLS_FILE_MOUNT_ID_g; extern hid_t H5P_CLS_GROUP_CREATE_ID_g; extern hid_t H5P_CLS_GROUP_ACCESS_ID_g; extern hid_t H5P_CLS_DATATYPE_CREATE_ID_g; extern hid_t H5P_CLS_DATATYPE_ACCESS_ID_g; extern hid_t H5P_CLS_STRING_CREATE_ID_g; extern hid_t H5P_CLS_ATTRIBUTE_CREATE_ID_g; extern hid_t H5P_CLS_OBJECT_COPY_ID_g; extern hid_t H5P_CLS_LINK_CREATE_ID_g; extern hid_t H5P_CLS_LINK_ACCESS_ID_g; extern hid_t H5P_LST_FILE_CREATE_ID_g; extern hid_t H5P_LST_FILE_ACCESS_ID_g; extern hid_t H5P_LST_DATASET_CREATE_ID_g; extern hid_t H5P_LST_DATASET_ACCESS_ID_g; extern hid_t H5P_LST_DATASET_XFER_ID_g; extern hid_t H5P_LST_FILE_MOUNT_ID_g; extern hid_t H5P_LST_GROUP_CREATE_ID_g; extern hid_t H5P_LST_GROUP_ACCESS_ID_g; extern hid_t H5P_LST_DATATYPE_CREATE_ID_g; extern hid_t H5P_LST_DATATYPE_ACCESS_ID_g; extern hid_t H5P_LST_ATTRIBUTE_CREATE_ID_g; extern hid_t H5P_LST_OBJECT_COPY_ID_g; extern hid_t H5P_LST_LINK_CREATE_ID_g; extern hid_t H5P_LST_LINK_ACCESS_ID_g; hid_t H5Pcreate_class(hid_t parent, const char *name, H5P_cls_create_func_t cls_create, void *create_data, H5P_cls_copy_func_t cls_copy, void *copy_data, H5P_cls_close_func_t cls_close, void *close_data); char *H5Pget_class_name(hid_t pclass_id); hid_t H5Pcreate(hid_t cls_id); herr_t H5Pregister2(hid_t cls_id, const char *name, size_t size, void *def_value, H5P_prp_create_func_t prp_create, H5P_prp_set_func_t prp_set, H5P_prp_get_func_t prp_get, H5P_prp_delete_func_t prp_del, H5P_prp_copy_func_t prp_copy, H5P_prp_compare_func_t prp_cmp, H5P_prp_close_func_t prp_close); herr_t H5Pinsert2(hid_t plist_id, const char *name, size_t size, void *value, H5P_prp_set_func_t prp_set, H5P_prp_get_func_t prp_get, H5P_prp_delete_func_t prp_delete, H5P_prp_copy_func_t prp_copy, H5P_prp_compare_func_t prp_cmp, H5P_prp_close_func_t prp_close); herr_t H5Pset(hid_t plist_id, const char *name, void *value); htri_t H5Pexist(hid_t plist_id, const char *name); herr_t H5Pget_size(hid_t id, const char *name, size_t *size); herr_t H5Pget_nprops(hid_t id, size_t *nprops); hid_t H5Pget_class(hid_t plist_id); hid_t H5Pget_class_parent(hid_t pclass_id); herr_t H5Pget(hid_t plist_id, const char *name, void * value); htri_t H5Pequal(hid_t id1, hid_t id2); htri_t H5Pisa_class(hid_t plist_id, hid_t pclass_id); int H5Piterate(hid_t id, int *idx, H5P_iterate_t iter_func, void *iter_data); herr_t H5Pcopy_prop(hid_t dst_id, hid_t src_id, const char *name); herr_t H5Premove(hid_t plist_id, const char *name); herr_t H5Punregister(hid_t pclass_id, const char *name); herr_t H5Pclose_class(hid_t plist_id); herr_t H5Pclose(hid_t plist_id); hid_t H5Pcopy(hid_t plist_id); herr_t H5Pset_attr_phase_change(hid_t plist_id, unsigned max_compact, unsigned min_dense); herr_t H5Pget_attr_phase_change(hid_t plist_id, unsigned *max_compact, unsigned *min_dense); herr_t H5Pset_attr_creation_order(hid_t plist_id, unsigned crt_order_flags); herr_t H5Pget_attr_creation_order(hid_t plist_id, unsigned *crt_order_flags); herr_t H5Pset_obj_track_times(hid_t plist_id, hbool_t track_times); herr_t H5Pget_obj_track_times(hid_t plist_id, hbool_t *track_times); herr_t H5Pmodify_filter(hid_t plist_id, H5Z_filter_t filter, unsigned int flags, size_t cd_nelmts, const unsigned int cd_values[ ]); herr_t H5Pset_filter(hid_t plist_id, H5Z_filter_t filter, unsigned int flags, size_t cd_nelmts, const unsigned int c_values[]); int H5Pget_nfilters(hid_t plist_id); H5Z_filter_t H5Pget_filter2(hid_t plist_id, unsigned filter, unsigned int *flags , size_t *cd_nelmts , unsigned cd_values[] , size_t namelen, char name[], unsigned *filter_config ); herr_t H5Pget_filter_by_id2(hid_t plist_id, H5Z_filter_t id, unsigned int *flags , size_t *cd_nelmts , unsigned cd_values[] , size_t namelen, char name[] , unsigned *filter_config ); htri_t H5Pall_filters_avail(hid_t plist_id); herr_t H5Premove_filter(hid_t plist_id, H5Z_filter_t filter); herr_t H5Pset_deflate(hid_t plist_id, unsigned aggression); herr_t H5Pset_fletcher32(hid_t plist_id); herr_t H5Pget_version(hid_t plist_id, unsigned *boot , unsigned *freelist , unsigned *stab , unsigned *shhdr ); herr_t H5Pset_userblock(hid_t plist_id, hsize_t size); herr_t H5Pget_userblock(hid_t plist_id, hsize_t *size); herr_t H5Pset_sizes(hid_t plist_id, size_t sizeof_addr, size_t sizeof_size); herr_t H5Pget_sizes(hid_t plist_id, size_t *sizeof_addr , size_t *sizeof_size ); herr_t H5Pset_sym_k(hid_t plist_id, unsigned ik, unsigned lk); herr_t H5Pget_sym_k(hid_t plist_id, unsigned *ik , unsigned *lk ); herr_t H5Pset_istore_k(hid_t plist_id, unsigned ik); herr_t H5Pget_istore_k(hid_t plist_id, unsigned *ik ); herr_t H5Pset_shared_mesg_nindexes(hid_t plist_id, unsigned nindexes); herr_t H5Pget_shared_mesg_nindexes(hid_t plist_id, unsigned *nindexes); herr_t H5Pset_shared_mesg_index(hid_t plist_id, unsigned index_num, unsigned mesg_type_flags, unsigned min_mesg_size); herr_t H5Pget_shared_mesg_index(hid_t plist_id, unsigned index_num, unsigned *mesg_type_flags, unsigned *min_mesg_size); herr_t H5Pset_shared_mesg_phase_change(hid_t plist_id, unsigned max_list, unsigned min_btree); herr_t H5Pget_shared_mesg_phase_change(hid_t plist_id, unsigned *max_list, unsigned *min_btree); herr_t H5Pset_alignment(hid_t fapl_id, hsize_t threshold, hsize_t alignment); herr_t H5Pget_alignment(hid_t fapl_id, hsize_t *threshold , hsize_t *alignment ); herr_t H5Pset_driver(hid_t plist_id, hid_t driver_id, const void *driver_info); hid_t H5Pget_driver(hid_t plist_id); void *H5Pget_driver_info(hid_t plist_id); herr_t H5Pset_family_offset(hid_t fapl_id, hsize_t offset); herr_t H5Pget_family_offset(hid_t fapl_id, hsize_t *offset); herr_t H5Pset_multi_type(hid_t fapl_id, H5FD_mem_t type); herr_t H5Pget_multi_type(hid_t fapl_id, H5FD_mem_t *type); herr_t H5Pset_cache(hid_t plist_id, int mdc_nelmts, size_t rdcc_nslots, size_t rdcc_nbytes, double rdcc_w0); herr_t H5Pget_cache(hid_t plist_id, int *mdc_nelmts, size_t *rdcc_nslots , size_t *rdcc_nbytes , double *rdcc_w0); herr_t H5Pset_mdc_config(hid_t plist_id, H5AC_cache_config_t * config_ptr); herr_t H5Pget_mdc_config(hid_t plist_id, H5AC_cache_config_t * config_ptr); herr_t H5Pset_gc_references(hid_t fapl_id, unsigned gc_ref); herr_t H5Pget_gc_references(hid_t fapl_id, unsigned *gc_ref ); herr_t H5Pset_fclose_degree(hid_t fapl_id, H5F_close_degree_t degree); herr_t H5Pget_fclose_degree(hid_t fapl_id, H5F_close_degree_t *degree); herr_t H5Pset_meta_block_size(hid_t fapl_id, hsize_t size); herr_t H5Pget_meta_block_size(hid_t fapl_id, hsize_t *size ); herr_t H5Pset_sieve_buf_size(hid_t fapl_id, size_t size); herr_t H5Pget_sieve_buf_size(hid_t fapl_id, size_t *size ); herr_t H5Pset_small_data_block_size(hid_t fapl_id, hsize_t size); herr_t H5Pget_small_data_block_size(hid_t fapl_id, hsize_t *size ); herr_t H5Pset_libver_bounds(hid_t plist_id, H5F_libver_t low, H5F_libver_t high); herr_t H5Pget_libver_bounds(hid_t plist_id, H5F_libver_t *low, H5F_libver_t *high); herr_t H5Pset_elink_file_cache_size(hid_t plist_id, unsigned efc_size); herr_t H5Pget_elink_file_cache_size(hid_t plist_id, unsigned *efc_size); herr_t H5Pset_file_image(hid_t fapl_id, void *buf_ptr, size_t buf_len); herr_t H5Pget_file_image(hid_t fapl_id, void **buf_ptr_ptr, size_t *buf_len_ptr); herr_t H5Pset_file_image_callbacks(hid_t fapl_id, H5FD_file_image_callbacks_t *callbacks_ptr); herr_t H5Pget_file_image_callbacks(hid_t fapl_id, H5FD_file_image_callbacks_t *callbacks_ptr); herr_t H5Pset_core_write_tracking(hid_t fapl_id, hbool_t is_enabled, size_t page_size); herr_t H5Pget_core_write_tracking(hid_t fapl_id, hbool_t *is_enabled, size_t *page_size); herr_t H5Pset_layout(hid_t plist_id, H5D_layout_t layout); H5D_layout_t H5Pget_layout(hid_t plist_id); herr_t H5Pset_chunk(hid_t plist_id, int ndims, const hsize_t dim[ ]); int H5Pget_chunk(hid_t plist_id, int max_ndims, hsize_t dim[] ); herr_t H5Pset_external(hid_t plist_id, const char *name, off_t offset, hsize_t size); int H5Pget_external_count(hid_t plist_id); herr_t H5Pget_external(hid_t plist_id, unsigned idx, size_t name_size, char *name , off_t *offset , hsize_t *size ); herr_t H5Pset_szip(hid_t plist_id, unsigned options_mask, unsigned pixels_per_block); herr_t H5Pset_shuffle(hid_t plist_id); herr_t H5Pset_nbit(hid_t plist_id); herr_t H5Pset_scaleoffset(hid_t plist_id, H5Z_SO_scale_type_t scale_type, int scale_factor); herr_t H5Pset_fill_value(hid_t plist_id, hid_t type_id, const void *value); herr_t H5Pget_fill_value(hid_t plist_id, hid_t type_id, void *value ); herr_t H5Pfill_value_defined(hid_t plist, H5D_fill_value_t *status); herr_t H5Pset_alloc_time(hid_t plist_id, H5D_alloc_time_t alloc_time); herr_t H5Pget_alloc_time(hid_t plist_id, H5D_alloc_time_t *alloc_time ); herr_t H5Pset_fill_time(hid_t plist_id, H5D_fill_time_t fill_time); herr_t H5Pget_fill_time(hid_t plist_id, H5D_fill_time_t *fill_time ); herr_t H5Pset_chunk_cache(hid_t dapl_id, size_t rdcc_nslots, size_t rdcc_nbytes, double rdcc_w0); herr_t H5Pget_chunk_cache(hid_t dapl_id, size_t *rdcc_nslots , size_t *rdcc_nbytes , double *rdcc_w0 ); herr_t H5Pset_data_transform(hid_t plist_id, const char* expression); ssize_t H5Pget_data_transform(hid_t plist_id, char* expression , size_t size); herr_t H5Pset_buffer(hid_t plist_id, size_t size, void *tconv, void *bkg); size_t H5Pget_buffer(hid_t plist_id, void **tconv , void **bkg ); herr_t H5Pset_preserve(hid_t plist_id, hbool_t status); int H5Pget_preserve(hid_t plist_id); herr_t H5Pset_edc_check(hid_t plist_id, H5Z_EDC_t check); H5Z_EDC_t H5Pget_edc_check(hid_t plist_id); herr_t H5Pset_filter_callback(hid_t plist_id, H5Z_filter_func_t func, void* op_data); herr_t H5Pset_btree_ratios(hid_t plist_id, double left, double middle, double right); herr_t H5Pget_btree_ratios(hid_t plist_id, double *left , double *middle , double *right ); herr_t H5Pset_vlen_mem_manager(hid_t plist_id, H5MM_allocate_t alloc_func, void *alloc_info, H5MM_free_t free_func, void *free_info); herr_t H5Pget_vlen_mem_manager(hid_t plist_id, H5MM_allocate_t *alloc_func, void **alloc_info, H5MM_free_t *free_func, void **free_info); herr_t H5Pset_hyper_vector_size(hid_t fapl_id, size_t size); herr_t H5Pget_hyper_vector_size(hid_t fapl_id, size_t *size ); herr_t H5Pset_type_conv_cb(hid_t dxpl_id, H5T_conv_except_func_t op, void* operate_data); herr_t H5Pget_type_conv_cb(hid_t dxpl_id, H5T_conv_except_func_t *op, void** operate_data); herr_t H5Pset_create_intermediate_group(hid_t plist_id, unsigned crt_intmd); herr_t H5Pget_create_intermediate_group(hid_t plist_id, unsigned *crt_intmd ); herr_t H5Pset_local_heap_size_hint(hid_t plist_id, size_t size_hint); herr_t H5Pget_local_heap_size_hint(hid_t plist_id, size_t *size_hint ); herr_t H5Pset_link_phase_change(hid_t plist_id, unsigned max_compact, unsigned min_dense); herr_t H5Pget_link_phase_change(hid_t plist_id, unsigned *max_compact , unsigned *min_dense ); herr_t H5Pset_est_link_info(hid_t plist_id, unsigned est_num_entries, unsigned est_name_len); herr_t H5Pget_est_link_info(hid_t plist_id, unsigned *est_num_entries , unsigned *est_name_len ); herr_t H5Pset_link_creation_order(hid_t plist_id, unsigned crt_order_flags); herr_t H5Pget_link_creation_order(hid_t plist_id, unsigned *crt_order_flags ); herr_t H5Pset_char_encoding(hid_t plist_id, H5T_cset_t encoding); herr_t H5Pget_char_encoding(hid_t plist_id, H5T_cset_t *encoding ); herr_t H5Pset_nlinks(hid_t plist_id, size_t nlinks); herr_t H5Pget_nlinks(hid_t plist_id, size_t *nlinks); herr_t H5Pset_elink_prefix(hid_t plist_id, const char *prefix); ssize_t H5Pget_elink_prefix(hid_t plist_id, char *prefix, size_t size); hid_t H5Pget_elink_fapl(hid_t lapl_id); herr_t H5Pset_elink_fapl(hid_t lapl_id, hid_t fapl_id); herr_t H5Pset_elink_acc_flags(hid_t lapl_id, unsigned flags); herr_t H5Pget_elink_acc_flags(hid_t lapl_id, unsigned *flags); herr_t H5Pset_elink_cb(hid_t lapl_id, H5L_elink_traverse_t func, void *op_data); herr_t H5Pget_elink_cb(hid_t lapl_id, H5L_elink_traverse_t *func, void **op_data); herr_t H5Pset_copy_object(hid_t plist_id, unsigned crt_intmd); herr_t H5Pget_copy_object(hid_t plist_id, unsigned *crt_intmd ); herr_t H5Padd_merge_committed_dtype_path(hid_t plist_id, const char *path); herr_t H5Pfree_merge_committed_dtype_paths(hid_t plist_id); herr_t H5Pset_mcdt_search_cb(hid_t plist_id, H5O_mcdt_search_cb_t func, void *op_data); herr_t H5Pget_mcdt_search_cb(hid_t plist_id, H5O_mcdt_search_cb_t *func, void **op_data); # 476 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Ppublic.h" herr_t H5Pregister1(hid_t cls_id, const char *name, size_t size, void *def_value, H5P_prp_create_func_t prp_create, H5P_prp_set_func_t prp_set, H5P_prp_get_func_t prp_get, H5P_prp_delete_func_t prp_del, H5P_prp_copy_func_t prp_copy, H5P_prp_close_func_t prp_close); herr_t H5Pinsert1(hid_t plist_id, const char *name, size_t size, void *value, H5P_prp_set_func_t prp_set, H5P_prp_get_func_t prp_get, H5P_prp_delete_func_t prp_delete, H5P_prp_copy_func_t prp_copy, H5P_prp_close_func_t prp_close); H5Z_filter_t H5Pget_filter1(hid_t plist_id, unsigned filter, unsigned int *flags , size_t *cd_nelmts , unsigned cd_values[] , size_t namelen, char name[]); herr_t H5Pget_filter_by_id1(hid_t plist_id, H5Z_filter_t id, unsigned int *flags , size_t *cd_nelmts , unsigned cd_values[] , size_t namelen, char name[] ); # 37 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5PLpublic.h" 1 # 30 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5PLpublic.h" typedef enum H5PL_type_t { H5PL_TYPE_ERROR = -1, H5PL_TYPE_FILTER = 0, H5PL_TYPE_NONE = 1 } H5PL_type_t; # 45 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5PLpublic.h" herr_t H5PLset_loading_state(unsigned int plugin_type); herr_t H5PLget_loading_state(unsigned int *plugin_type ); # 38 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Rpublic.h" 1 # 30 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Rpublic.h" typedef enum { H5R_BADTYPE = (-1), H5R_OBJECT, H5R_DATASET_REGION, H5R_MAXTYPE } H5R_type_t; # 44 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Rpublic.h" typedef haddr_t hobj_ref_t; typedef unsigned char hdset_reg_ref_t[(sizeof(haddr_t)+4)]; # 61 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Rpublic.h" herr_t H5Rcreate(void *ref, hid_t loc_id, const char *name, H5R_type_t ref_type, hid_t space_id); hid_t H5Rdereference(hid_t dataset, H5R_type_t ref_type, const void *ref); hid_t H5Rget_region(hid_t dataset, H5R_type_t ref_type, const void *ref); herr_t H5Rget_obj_type2(hid_t id, H5R_type_t ref_type, const void *_ref, H5O_type_t *obj_type); ssize_t H5Rget_name(hid_t loc_id, H5R_type_t ref_type, const void *ref, char *name , size_t size); # 83 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Rpublic.h" H5G_obj_t H5Rget_obj_type1(hid_t id, H5R_type_t ref_type, const void *_ref); # 39 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Spublic.h" 1 # 34 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Spublic.h" typedef enum H5S_class_t { H5S_NO_CLASS = -1, H5S_SCALAR = 0, H5S_SIMPLE = 1, H5S_NULL = 2 } H5S_class_t; typedef enum H5S_seloper_t { H5S_SELECT_NOOP = -1, H5S_SELECT_SET = 0, H5S_SELECT_OR, H5S_SELECT_AND, H5S_SELECT_XOR, H5S_SELECT_NOTB, H5S_SELECT_NOTA, H5S_SELECT_APPEND, H5S_SELECT_PREPEND, H5S_SELECT_INVALID } H5S_seloper_t; typedef enum { H5S_SEL_ERROR = -1, H5S_SEL_NONE = 0, H5S_SEL_POINTS = 1, H5S_SEL_HYPERSLABS = 2, H5S_SEL_ALL = 3, H5S_SEL_N }H5S_sel_type; hid_t H5Screate(H5S_class_t type); hid_t H5Screate_simple(int rank, const hsize_t dims[], const hsize_t maxdims[]); herr_t H5Sset_extent_simple(hid_t space_id, int rank, const hsize_t dims[], const hsize_t max[]); hid_t H5Scopy(hid_t space_id); herr_t H5Sclose(hid_t space_id); herr_t H5Sencode(hid_t obj_id, void *buf, size_t *nalloc); hid_t H5Sdecode(const void *buf); hssize_t H5Sget_simple_extent_npoints(hid_t space_id); int H5Sget_simple_extent_ndims(hid_t space_id); int H5Sget_simple_extent_dims(hid_t space_id, hsize_t dims[], hsize_t maxdims[]); htri_t H5Sis_simple(hid_t space_id); hssize_t H5Sget_select_npoints(hid_t spaceid); herr_t H5Sselect_hyperslab(hid_t space_id, H5S_seloper_t op, const hsize_t start[], const hsize_t _stride[], const hsize_t count[], const hsize_t _block[]); # 128 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5Spublic.h" herr_t H5Sselect_elements(hid_t space_id, H5S_seloper_t op, size_t num_elem, const hsize_t *coord); H5S_class_t H5Sget_simple_extent_type(hid_t space_id); herr_t H5Sset_extent_none(hid_t space_id); herr_t H5Sextent_copy(hid_t dst_id,hid_t src_id); htri_t H5Sextent_equal(hid_t sid1, hid_t sid2); herr_t H5Sselect_all(hid_t spaceid); herr_t H5Sselect_none(hid_t spaceid); herr_t H5Soffset_simple(hid_t space_id, const hssize_t *offset); htri_t H5Sselect_valid(hid_t spaceid); hssize_t H5Sget_select_hyper_nblocks(hid_t spaceid); hssize_t H5Sget_select_elem_npoints(hid_t spaceid); herr_t H5Sget_select_hyper_blocklist(hid_t spaceid, hsize_t startblock, hsize_t numblocks, hsize_t buf[ ]); herr_t H5Sget_select_elem_pointlist(hid_t spaceid, hsize_t startpoint, hsize_t numpoints, hsize_t buf[ ]); herr_t H5Sget_select_bounds(hid_t spaceid, hsize_t start[], hsize_t end[]); H5S_sel_type H5Sget_select_type(hid_t spaceid); # 40 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDcore.h" 1 # 32 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDcore.h" hid_t H5FD_core_init(void); void H5FD_core_term(void); herr_t H5Pset_fapl_core(hid_t fapl_id, size_t increment, hbool_t backing_store); herr_t H5Pget_fapl_core(hid_t fapl_id, size_t *increment , hbool_t *backing_store ); # 45 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDfamily.h" 1 # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDfamily.h" hid_t H5FD_family_init(void); void H5FD_family_term(void); herr_t H5Pset_fapl_family(hid_t fapl_id, hsize_t memb_size, hid_t memb_fapl_id); herr_t H5Pget_fapl_family(hid_t fapl_id, hsize_t *memb_size , hid_t *memb_fapl_id ); # 46 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDlog.h" 1 # 63 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDlog.h" hid_t H5FD_log_init(void); void H5FD_log_term(void); herr_t H5Pset_fapl_log(hid_t fapl_id, const char *logfile, unsigned long long flags, size_t buf_size); # 47 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDmpi.h" 1 # 40 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDmpi.h" typedef enum H5FD_mpio_xfer_t { H5FD_MPIO_INDEPENDENT = 0, H5FD_MPIO_COLLECTIVE } H5FD_mpio_xfer_t; typedef enum H5FD_mpio_chunk_opt_t { H5FD_MPIO_CHUNK_DEFAULT = 0, H5FD_MPIO_CHUNK_ONE_IO, H5FD_MPIO_CHUNK_MULTI_IO } H5FD_mpio_chunk_opt_t; typedef enum H5FD_mpio_collective_opt_t { H5FD_MPIO_COLLECTIVE_IO = 0, H5FD_MPIO_INDIVIDUAL_IO } H5FD_mpio_collective_opt_t; # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDmpio.h" 1 # 60 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDmpi.h" 2 # 48 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDmulti.h" 1 # 34 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDmulti.h" hid_t H5FD_multi_init(void); void H5FD_multi_term(void); herr_t H5Pset_fapl_multi(hid_t fapl_id, const H5FD_mem_t *memb_map, const hid_t *memb_fapl, const char * const *memb_name, const haddr_t *memb_addr, hbool_t relax); herr_t H5Pget_fapl_multi(hid_t fapl_id, H5FD_mem_t *memb_map , hid_t *memb_fapl , char **memb_name , haddr_t *memb_addr , hbool_t *relax ); herr_t H5Pset_fapl_split(hid_t fapl, const char *meta_ext, hid_t meta_plist_id, const char *raw_ext, hid_t raw_plist_id); # 49 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDsec2.h" 1 # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDsec2.h" hid_t H5FD_sec2_init(void); void H5FD_sec2_term(void); herr_t H5Pset_fapl_sec2(hid_t fapl_id); # 50 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDstdio.h" 1 # 33 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDstdio.h" hid_t H5FD_stdio_init(void); void H5FD_stdio_term(void); herr_t H5Pset_fapl_stdio(hid_t fapl_id); # 51 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 1 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/H5FDdirect.h" 1 # 55 "/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include/hdf5.h" 2 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['hdf5.h'] in ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C Checking for functions [H5Pset_fapl_mpio] in library ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/libhdf5hl_fortran.a', 'libhdf5_fortran.a', 'libhdf5_hl.a', 'libhdf5.a', '/home/thl/petsc/fast_double/lib/libz.a', 'libm.a'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char H5Pset_fapl_mpio(); static void _check_H5Pset_fapl_mpio() { H5Pset_fapl_mpio(); } int main() { _check_H5Pset_fapl_mpio();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'H5Pset_fapl_mpio' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.hdf5(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.hdf5(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.med(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.med(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.cgns(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.cgns(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ascem-io(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.ascem-io(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pflotran(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.pflotran(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.alquimia(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.alquimia(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.netcdf(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.netcdf(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.netcdf(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.netcdf(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional netcdf NETCDF: UserSpecified DirPath not found.. skipping: /share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib Checking for library in User specified root directory NETCDF: ['/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/libnetcdf.a'] Contents: ['include', 'lib64', 'bin', 'share', 'easybuild'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [nccreate] in library ['/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64/libnetcdf.a'] ['/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib/libhdf5hl_fortran.a', 'libhdf5_fortran.a', 'libhdf5_hl.a', 'libhdf5.a', '/home/thl/petsc/fast_double/lib/libz.a', 'libm.a'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char nccreate(); static void _check_nccreate() { nccreate(); } int main() { _check_nccreate();; return 0; } Pushing language Cxx Pushing language CXX Popping language CXX Popping language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -lnetcdf -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBNETCDF" to "1" Popping language C Checking for headers User specified root directory NETCDF: ['/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language Cxx ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['netcdf.h'] in ['/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include', '/home/thl/petsc/fast_double/include'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include -I/home/thl/petsc/fast_double/include /tmp/petsc-n3SpCv/config.headers/conftest.cc stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.cc" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.cc" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.cc" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 extern "C" { } # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.cc" 2 # 1 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" 1 # 15 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 16 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" 2 # 1 "/usr/include/errno.h" 1 3 4 # 29 "/usr/include/errno.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 30 "/usr/include/errno.h" 2 3 4 extern "C" { # 1 "/usr/include/bits/errno.h" 1 3 4 # 25 "/usr/include/bits/errno.h" 3 4 # 1 "/usr/include/linux/errno.h" 1 3 4 # 1 "/usr/include/asm/errno.h" 1 3 4 # 1 "/usr/include/asm-generic/errno.h" 1 3 4 # 1 "/usr/include/asm-generic/errno-base.h" 1 3 4 # 5 "/usr/include/asm-generic/errno.h" 2 3 4 # 1 "/usr/include/asm/errno.h" 2 3 4 # 5 "/usr/include/linux/errno.h" 2 3 4 # 26 "/usr/include/bits/errno.h" 2 3 4 # 47 "/usr/include/bits/errno.h" 3 4 extern int *__errno_location (void) throw () __attribute__ ((__const__)); # 37 "/usr/include/errno.h" 2 3 4 # 55 "/usr/include/errno.h" 3 4 extern char *program_invocation_name, *program_invocation_short_name; } # 69 "/usr/include/errno.h" 3 4 typedef int error_t; # 17 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" 2 # 28 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" typedef int nc_type; extern "C" { # 499 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern const char * nc_inq_libvers(void); extern const char * nc_strerror(int ncerr); extern int nc__create(const char *path, int cmode, size_t initialsz, size_t *chunksizehintp, int *ncidp); extern int nc_create(const char *path, int cmode, int *ncidp); extern int nc__open(const char *path, int mode, size_t *chunksizehintp, int *ncidp); extern int nc_open(const char *path, int mode, int *ncidp); extern int nc_inq_path(int ncid, size_t *pathlen, char *path); extern int nc_inq_ncid(int ncid, const char *name, int *grp_ncid); extern int nc_inq_grps(int ncid, int *numgrps, int *ncids); extern int nc_inq_grpname(int ncid, char *name); extern int nc_inq_grpname_full(int ncid, size_t *lenp, char *full_name); extern int nc_inq_grpname_len(int ncid, size_t *lenp); extern int nc_inq_grp_parent(int ncid, int *parent_ncid); extern int nc_inq_grp_ncid(int ncid, const char *grp_name, int *grp_ncid); extern int nc_inq_grp_full_ncid(int ncid, const char *full_name, int *grp_ncid); extern int nc_inq_varids(int ncid, int *nvars, int *varids); extern int nc_inq_dimids(int ncid, int *ndims, int *dimids, int include_parents); extern int nc_inq_typeids(int ncid, int *ntypes, int *typeids); extern int nc_inq_type_equal(int ncid1, nc_type typeid1, int ncid2, nc_type typeid2, int *equal); extern int nc_def_grp(int parent_ncid, const char *name, int *new_ncid); extern int nc_rename_grp(int grpid, const char *name); extern int nc_def_compound(int ncid, size_t size, const char *name, nc_type *typeidp); extern int nc_insert_compound(int ncid, nc_type xtype, const char *name, size_t offset, nc_type field_typeid); extern int nc_insert_array_compound(int ncid, nc_type xtype, const char *name, size_t offset, nc_type field_typeid, int ndims, const int *dim_sizes); extern int nc_inq_type(int ncid, nc_type xtype, char *name, size_t *size); extern int nc_inq_typeid(int ncid, const char *name, nc_type *typeidp); extern int nc_inq_compound(int ncid, nc_type xtype, char *name, size_t *sizep, size_t *nfieldsp); extern int nc_inq_compound_name(int ncid, nc_type xtype, char *name); extern int nc_inq_compound_size(int ncid, nc_type xtype, size_t *sizep); extern int nc_inq_compound_nfields(int ncid, nc_type xtype, size_t *nfieldsp); extern int nc_inq_compound_field(int ncid, nc_type xtype, int fieldid, char *name, size_t *offsetp, nc_type *field_typeidp, int *ndimsp, int *dim_sizesp); extern int nc_inq_compound_fieldname(int ncid, nc_type xtype, int fieldid, char *name); extern int nc_inq_compound_fieldindex(int ncid, nc_type xtype, const char *name, int *fieldidp); extern int nc_inq_compound_fieldoffset(int ncid, nc_type xtype, int fieldid, size_t *offsetp); extern int nc_inq_compound_fieldtype(int ncid, nc_type xtype, int fieldid, nc_type *field_typeidp); extern int nc_inq_compound_fieldndims(int ncid, nc_type xtype, int fieldid, int *ndimsp); extern int nc_inq_compound_fielddim_sizes(int ncid, nc_type xtype, int fieldid, int *dim_sizes); typedef struct { size_t len; void *p; } nc_vlen_t; # 678 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern int nc_def_vlen(int ncid, const char *name, nc_type base_typeid, nc_type *xtypep); extern int nc_inq_vlen(int ncid, nc_type xtype, char *name, size_t *datum_sizep, nc_type *base_nc_typep); extern int nc_free_vlen(nc_vlen_t *vl); extern int nc_free_vlens(size_t len, nc_vlen_t vlens[]); extern int nc_put_vlen_element(int ncid, int typeid1, void *vlen_element, size_t len, const void *data); extern int nc_get_vlen_element(int ncid, int typeid1, const void *vlen_element, size_t *len, void *data); extern int nc_free_string(size_t len, char **data); extern int nc_inq_user_type(int ncid, nc_type xtype, char *name, size_t *size, nc_type *base_nc_typep, size_t *nfieldsp, int *classp); extern int nc_put_att(int ncid, int varid, const char *name, nc_type xtype, size_t len, const void *op); extern int nc_get_att(int ncid, int varid, const char *name, void *ip); extern int nc_def_enum(int ncid, nc_type base_typeid, const char *name, nc_type *typeidp); extern int nc_insert_enum(int ncid, nc_type xtype, const char *name, const void *value); extern int nc_inq_enum(int ncid, nc_type xtype, char *name, nc_type *base_nc_typep, size_t *base_sizep, size_t *num_membersp); extern int nc_inq_enum_member(int ncid, nc_type xtype, int idx, char *name, void *value); extern int nc_inq_enum_ident(int ncid, nc_type xtype, long long value, char *identifier); extern int nc_def_opaque(int ncid, size_t size, const char *name, nc_type *xtypep); extern int nc_inq_opaque(int ncid, nc_type xtype, char *name, size_t *sizep); extern int nc_put_var(int ncid, int varid, const void *op); extern int nc_get_var(int ncid, int varid, void *ip); extern int nc_put_var1(int ncid, int varid, const size_t *indexp, const void *op); extern int nc_get_var1(int ncid, int varid, const size_t *indexp, void *ip); extern int nc_put_vara(int ncid, int varid, const size_t *startp, const size_t *countp, const void *op); extern int nc_get_vara(int ncid, int varid, const size_t *startp, const size_t *countp, void *ip); extern int nc_put_vars(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const void *op); extern int nc_get_vars(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, void *ip); extern int nc_put_varm(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const void *op); extern int nc_get_varm(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, void *ip); extern int nc_def_var_deflate(int ncid, int varid, int shuffle, int deflate, int deflate_level); extern int nc_inq_var_deflate(int ncid, int varid, int *shufflep, int *deflatep, int *deflate_levelp); extern int nc_inq_var_szip(int ncid, int varid, int *options_maskp, int *pixels_per_blockp); extern int nc_def_var_fletcher32(int ncid, int varid, int fletcher32); extern int nc_inq_var_fletcher32(int ncid, int varid, int *fletcher32p); extern int nc_def_var_chunking(int ncid, int varid, int storage, const size_t *chunksizesp); extern int nc_inq_var_chunking(int ncid, int varid, int *storagep, size_t *chunksizesp); extern int nc_def_var_fill(int ncid, int varid, int no_fill, const void *fill_value); extern int nc_inq_var_fill(int ncid, int varid, int *no_fill, void *fill_valuep); extern int nc_def_var_endian(int ncid, int varid, int endian); extern int nc_inq_var_endian(int ncid, int varid, int *endianp); extern int nc_set_fill(int ncid, int fillmode, int *old_modep); extern int nc_set_default_format(int format, int *old_formatp); extern int nc_set_chunk_cache(size_t size, size_t nelems, float preemption); extern int nc_get_chunk_cache(size_t *sizep, size_t *nelemsp, float *preemptionp); extern int nc_set_var_chunk_cache(int ncid, int varid, size_t size, size_t nelems, float preemption); extern int nc_get_var_chunk_cache(int ncid, int varid, size_t *sizep, size_t *nelemsp, float *preemptionp); extern int nc_redef(int ncid); extern int nc__enddef(int ncid, size_t h_minfree, size_t v_align, size_t v_minfree, size_t r_align); extern int nc_enddef(int ncid); extern int nc_sync(int ncid); extern int nc_abort(int ncid); extern int nc_close(int ncid); extern int nc_inq(int ncid, int *ndimsp, int *nvarsp, int *nattsp, int *unlimdimidp); extern int nc_inq_ndims(int ncid, int *ndimsp); extern int nc_inq_nvars(int ncid, int *nvarsp); extern int nc_inq_natts(int ncid, int *nattsp); extern int nc_inq_unlimdim(int ncid, int *unlimdimidp); extern int nc_inq_unlimdims(int ncid, int *nunlimdimsp, int *unlimdimidsp); extern int nc_inq_format(int ncid, int *formatp); extern int nc_inq_format_extended(int ncid, int *formatp, int* modep); extern int nc_def_dim(int ncid, const char *name, size_t len, int *idp); extern int nc_inq_dimid(int ncid, const char *name, int *idp); extern int nc_inq_dim(int ncid, int dimid, char *name, size_t *lenp); extern int nc_inq_dimname(int ncid, int dimid, char *name); extern int nc_inq_dimlen(int ncid, int dimid, size_t *lenp); extern int nc_rename_dim(int ncid, int dimid, const char *name); extern int nc_inq_att(int ncid, int varid, const char *name, nc_type *xtypep, size_t *lenp); extern int nc_inq_attid(int ncid, int varid, const char *name, int *idp); extern int nc_inq_atttype(int ncid, int varid, const char *name, nc_type *xtypep); extern int nc_inq_attlen(int ncid, int varid, const char *name, size_t *lenp); extern int nc_inq_attname(int ncid, int varid, int attnum, char *name); extern int nc_copy_att(int ncid_in, int varid_in, const char *name, int ncid_out, int varid_out); extern int nc_rename_att(int ncid, int varid, const char *name, const char *newname); extern int nc_del_att(int ncid, int varid, const char *name); extern int nc_put_att_text(int ncid, int varid, const char *name, size_t len, const char *op); extern int nc_get_att_text(int ncid, int varid, const char *name, char *ip); extern int nc_put_att_string(int ncid, int varid, const char *name, size_t len, const char **op); extern int nc_get_att_string(int ncid, int varid, const char *name, char **ip); extern int nc_put_att_uchar(int ncid, int varid, const char *name, nc_type xtype, size_t len, const unsigned char *op); extern int nc_get_att_uchar(int ncid, int varid, const char *name, unsigned char *ip); extern int nc_put_att_schar(int ncid, int varid, const char *name, nc_type xtype, size_t len, const signed char *op); extern int nc_get_att_schar(int ncid, int varid, const char *name, signed char *ip); extern int nc_put_att_short(int ncid, int varid, const char *name, nc_type xtype, size_t len, const short *op); extern int nc_get_att_short(int ncid, int varid, const char *name, short *ip); extern int nc_put_att_int(int ncid, int varid, const char *name, nc_type xtype, size_t len, const int *op); extern int nc_get_att_int(int ncid, int varid, const char *name, int *ip); extern int nc_put_att_long(int ncid, int varid, const char *name, nc_type xtype, size_t len, const long *op); extern int nc_get_att_long(int ncid, int varid, const char *name, long *ip); extern int nc_put_att_float(int ncid, int varid, const char *name, nc_type xtype, size_t len, const float *op); extern int nc_get_att_float(int ncid, int varid, const char *name, float *ip); extern int nc_put_att_double(int ncid, int varid, const char *name, nc_type xtype, size_t len, const double *op); extern int nc_get_att_double(int ncid, int varid, const char *name, double *ip); extern int nc_put_att_ushort(int ncid, int varid, const char *name, nc_type xtype, size_t len, const unsigned short *op); extern int nc_get_att_ushort(int ncid, int varid, const char *name, unsigned short *ip); extern int nc_put_att_uint(int ncid, int varid, const char *name, nc_type xtype, size_t len, const unsigned int *op); extern int nc_get_att_uint(int ncid, int varid, const char *name, unsigned int *ip); extern int nc_put_att_longlong(int ncid, int varid, const char *name, nc_type xtype, size_t len, const long long *op); extern int nc_get_att_longlong(int ncid, int varid, const char *name, long long *ip); extern int nc_put_att_ulonglong(int ncid, int varid, const char *name, nc_type xtype, size_t len, const unsigned long long *op); extern int nc_get_att_ulonglong(int ncid, int varid, const char *name, unsigned long long *ip); extern int nc_def_var(int ncid, const char *name, nc_type xtype, int ndims, const int *dimidsp, int *varidp); extern int nc_inq_var(int ncid, int varid, char *name, nc_type *xtypep, int *ndimsp, int *dimidsp, int *nattsp); extern int nc_inq_varid(int ncid, const char *name, int *varidp); extern int nc_inq_varname(int ncid, int varid, char *name); extern int nc_inq_vartype(int ncid, int varid, nc_type *xtypep); extern int nc_inq_varndims(int ncid, int varid, int *ndimsp); extern int nc_inq_vardimid(int ncid, int varid, int *dimidsp); extern int nc_inq_varnatts(int ncid, int varid, int *nattsp); extern int nc_rename_var(int ncid, int varid, const char *name); extern int nc_copy_var(int ncid_in, int varid, int ncid_out); # 1130 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern int nc_put_var1_text(int ncid, int varid, const size_t *indexp, const char *op); extern int nc_get_var1_text(int ncid, int varid, const size_t *indexp, char *ip); extern int nc_put_var1_uchar(int ncid, int varid, const size_t *indexp, const unsigned char *op); extern int nc_get_var1_uchar(int ncid, int varid, const size_t *indexp, unsigned char *ip); extern int nc_put_var1_schar(int ncid, int varid, const size_t *indexp, const signed char *op); extern int nc_get_var1_schar(int ncid, int varid, const size_t *indexp, signed char *ip); extern int nc_put_var1_short(int ncid, int varid, const size_t *indexp, const short *op); extern int nc_get_var1_short(int ncid, int varid, const size_t *indexp, short *ip); extern int nc_put_var1_int(int ncid, int varid, const size_t *indexp, const int *op); extern int nc_get_var1_int(int ncid, int varid, const size_t *indexp, int *ip); extern int nc_put_var1_long(int ncid, int varid, const size_t *indexp, const long *op); extern int nc_get_var1_long(int ncid, int varid, const size_t *indexp, long *ip); extern int nc_put_var1_float(int ncid, int varid, const size_t *indexp, const float *op); extern int nc_get_var1_float(int ncid, int varid, const size_t *indexp, float *ip); extern int nc_put_var1_double(int ncid, int varid, const size_t *indexp, const double *op); extern int nc_get_var1_double(int ncid, int varid, const size_t *indexp, double *ip); extern int nc_put_var1_ushort(int ncid, int varid, const size_t *indexp, const unsigned short *op); extern int nc_get_var1_ushort(int ncid, int varid, const size_t *indexp, unsigned short *ip); extern int nc_put_var1_uint(int ncid, int varid, const size_t *indexp, const unsigned int *op); extern int nc_get_var1_uint(int ncid, int varid, const size_t *indexp, unsigned int *ip); extern int nc_put_var1_longlong(int ncid, int varid, const size_t *indexp, const long long *op); extern int nc_get_var1_longlong(int ncid, int varid, const size_t *indexp, long long *ip); extern int nc_put_var1_ulonglong(int ncid, int varid, const size_t *indexp, const unsigned long long *op); extern int nc_get_var1_ulonglong(int ncid, int varid, const size_t *indexp, unsigned long long *ip); extern int nc_put_var1_string(int ncid, int varid, const size_t *indexp, const char **op); extern int nc_get_var1_string(int ncid, int varid, const size_t *indexp, char **ip); extern int nc_put_vara_text(int ncid, int varid, const size_t *startp, const size_t *countp, const char *op); extern int nc_get_vara_text(int ncid, int varid, const size_t *startp, const size_t *countp, char *ip); extern int nc_put_vara_uchar(int ncid, int varid, const size_t *startp, const size_t *countp, const unsigned char *op); extern int nc_get_vara_uchar(int ncid, int varid, const size_t *startp, const size_t *countp, unsigned char *ip); extern int nc_put_vara_schar(int ncid, int varid, const size_t *startp, const size_t *countp, const signed char *op); extern int nc_get_vara_schar(int ncid, int varid, const size_t *startp, const size_t *countp, signed char *ip); extern int nc_put_vara_short(int ncid, int varid, const size_t *startp, const size_t *countp, const short *op); extern int nc_get_vara_short(int ncid, int varid, const size_t *startp, const size_t *countp, short *ip); extern int nc_put_vara_int(int ncid, int varid, const size_t *startp, const size_t *countp, const int *op); extern int nc_get_vara_int(int ncid, int varid, const size_t *startp, const size_t *countp, int *ip); extern int nc_put_vara_long(int ncid, int varid, const size_t *startp, const size_t *countp, const long *op); extern int nc_get_vara_long(int ncid, int varid, const size_t *startp, const size_t *countp, long *ip); extern int nc_put_vara_float(int ncid, int varid, const size_t *startp, const size_t *countp, const float *op); extern int nc_get_vara_float(int ncid, int varid, const size_t *startp, const size_t *countp, float *ip); extern int nc_put_vara_double(int ncid, int varid, const size_t *startp, const size_t *countp, const double *op); extern int nc_get_vara_double(int ncid, int varid, const size_t *startp, const size_t *countp, double *ip); extern int nc_put_vara_ushort(int ncid, int varid, const size_t *startp, const size_t *countp, const unsigned short *op); extern int nc_get_vara_ushort(int ncid, int varid, const size_t *startp, const size_t *countp, unsigned short *ip); extern int nc_put_vara_uint(int ncid, int varid, const size_t *startp, const size_t *countp, const unsigned int *op); extern int nc_get_vara_uint(int ncid, int varid, const size_t *startp, const size_t *countp, unsigned int *ip); extern int nc_put_vara_longlong(int ncid, int varid, const size_t *startp, const size_t *countp, const long long *op); extern int nc_get_vara_longlong(int ncid, int varid, const size_t *startp, const size_t *countp, long long *ip); extern int nc_put_vara_ulonglong(int ncid, int varid, const size_t *startp, const size_t *countp, const unsigned long long *op); extern int nc_get_vara_ulonglong(int ncid, int varid, const size_t *startp, const size_t *countp, unsigned long long *ip); extern int nc_put_vara_string(int ncid, int varid, const size_t *startp, const size_t *countp, const char **op); extern int nc_get_vara_string(int ncid, int varid, const size_t *startp, const size_t *countp, char **ip); extern int nc_put_vars_text(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const char *op); extern int nc_get_vars_text(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, char *ip); extern int nc_put_vars_uchar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const unsigned char *op); extern int nc_get_vars_uchar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, unsigned char *ip); extern int nc_put_vars_schar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const signed char *op); extern int nc_get_vars_schar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, signed char *ip); extern int nc_put_vars_short(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const short *op); extern int nc_get_vars_short(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, short *ip); extern int nc_put_vars_int(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const int *op); extern int nc_get_vars_int(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, int *ip); extern int nc_put_vars_long(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const long *op); extern int nc_get_vars_long(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, long *ip); extern int nc_put_vars_float(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const float *op); extern int nc_get_vars_float(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, float *ip); extern int nc_put_vars_double(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const double *op); extern int nc_get_vars_double(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, double *ip); extern int nc_put_vars_ushort(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const unsigned short *op); extern int nc_get_vars_ushort(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, unsigned short *ip); extern int nc_put_vars_uint(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const unsigned int *op); extern int nc_get_vars_uint(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, unsigned int *ip); extern int nc_put_vars_longlong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const long long *op); extern int nc_get_vars_longlong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, long long *ip); extern int nc_put_vars_ulonglong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const unsigned long long *op); extern int nc_get_vars_ulonglong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, unsigned long long *ip); extern int nc_put_vars_string(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const char **op); extern int nc_get_vars_string(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, char **ip); extern int nc_put_varm_text(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const char *op); extern int nc_get_varm_text(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, char *ip); extern int nc_put_varm_uchar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const unsigned char *op); extern int nc_get_varm_uchar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, unsigned char *ip); extern int nc_put_varm_schar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const signed char *op); extern int nc_get_varm_schar(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, signed char *ip); extern int nc_put_varm_short(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const short *op); extern int nc_get_varm_short(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, short *ip); extern int nc_put_varm_int(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const int *op); extern int nc_get_varm_int(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, int *ip); extern int nc_put_varm_long(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const long *op); extern int nc_get_varm_long(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, long *ip); extern int nc_put_varm_float(int ncid, int varid,const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const float *op); extern int nc_get_varm_float(int ncid, int varid,const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, float *ip); extern int nc_put_varm_double(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t *imapp, const double *op); extern int nc_get_varm_double(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, double *ip); extern int nc_put_varm_ushort(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, const unsigned short *op); extern int nc_get_varm_ushort(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, unsigned short *ip); extern int nc_put_varm_uint(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, const unsigned int *op); extern int nc_get_varm_uint(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, unsigned int *ip); extern int nc_put_varm_longlong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, const long long *op); extern int nc_get_varm_longlong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, long long *ip); extern int nc_put_varm_ulonglong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, const unsigned long long *op); extern int nc_get_varm_ulonglong(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, unsigned long long *ip); extern int nc_put_varm_string(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, const char **op); extern int nc_get_varm_string(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, char **ip); extern int nc_put_var_text(int ncid, int varid, const char *op); extern int nc_get_var_text(int ncid, int varid, char *ip); extern int nc_put_var_uchar(int ncid, int varid, const unsigned char *op); extern int nc_get_var_uchar(int ncid, int varid, unsigned char *ip); extern int nc_put_var_schar(int ncid, int varid, const signed char *op); extern int nc_get_var_schar(int ncid, int varid, signed char *ip); extern int nc_put_var_short(int ncid, int varid, const short *op); extern int nc_get_var_short(int ncid, int varid, short *ip); extern int nc_put_var_int(int ncid, int varid, const int *op); extern int nc_get_var_int(int ncid, int varid, int *ip); extern int nc_put_var_long(int ncid, int varid, const long *op); extern int nc_get_var_long(int ncid, int varid, long *ip); extern int nc_put_var_float(int ncid, int varid, const float *op); extern int nc_get_var_float(int ncid, int varid, float *ip); extern int nc_put_var_double(int ncid, int varid, const double *op); extern int nc_get_var_double(int ncid, int varid, double *ip); extern int nc_put_var_ushort(int ncid, int varid, const unsigned short *op); extern int nc_get_var_ushort(int ncid, int varid, unsigned short *ip); extern int nc_put_var_uint(int ncid, int varid, const unsigned int *op); extern int nc_get_var_uint(int ncid, int varid, unsigned int *ip); extern int nc_put_var_longlong(int ncid, int varid, const long long *op); extern int nc_get_var_longlong(int ncid, int varid, long long *ip); extern int nc_put_var_ulonglong(int ncid, int varid, const unsigned long long *op); extern int nc_get_var_ulonglong(int ncid, int varid, unsigned long long *ip); extern int nc_put_var_string(int ncid, int varid, const char **op); extern int nc_get_var_string(int ncid, int varid, char **ip); extern int nc_put_att_ubyte(int ncid, int varid, const char *name, nc_type xtype, size_t len, const unsigned char *op); extern int nc_get_att_ubyte(int ncid, int varid, const char *name, unsigned char *ip); extern int nc_put_var1_ubyte(int ncid, int varid, const size_t *indexp, const unsigned char *op); extern int nc_get_var1_ubyte(int ncid, int varid, const size_t *indexp, unsigned char *ip); extern int nc_put_vara_ubyte(int ncid, int varid, const size_t *startp, const size_t *countp, const unsigned char *op); extern int nc_get_vara_ubyte(int ncid, int varid, const size_t *startp, const size_t *countp, unsigned char *ip); extern int nc_put_vars_ubyte(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const unsigned char *op); extern int nc_get_vars_ubyte(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, unsigned char *ip); extern int nc_put_varm_ubyte(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, const unsigned char *op); extern int nc_get_varm_ubyte(int ncid, int varid, const size_t *startp, const size_t *countp, const ptrdiff_t *stridep, const ptrdiff_t * imapp, unsigned char *ip); extern int nc_put_var_ubyte(int ncid, int varid, const unsigned char *op); extern int nc_get_var_ubyte(int ncid, int varid, unsigned char *ip); # 1737 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern int nc_show_metadata(int ncid); # 1757 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern int nc__create_mp(const char *path, int cmode, size_t initialsz, int basepe, size_t *chunksizehintp, int *ncidp); extern int nc__open_mp(const char *path, int mode, int basepe, size_t *chunksizehintp, int *ncidp); extern int nc_delete(const char *path); extern int nc_delete_mp(const char *path, int basepe); extern int nc_set_base_pe(int ncid, int pe); extern int nc_inq_base_pe(int ncid, int *pe); extern int nctypelen(nc_type datatype); # 1810 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern int ncerr; # 1823 "/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include/netcdf.h" extern int ncopts; extern void nc_advise(const char *cdf_routine_name, int err, const char *fmt,...); typedef int nclong; extern int nccreate(const char* path, int cmode); extern int ncopen(const char* path, int mode); extern int ncsetfill(int ncid, int fillmode); extern int ncredef(int ncid); extern int ncendef(int ncid); extern int ncsync(int ncid); extern int ncabort(int ncid); extern int ncclose(int ncid); extern int ncinquire(int ncid, int *ndimsp, int *nvarsp, int *nattsp, int *unlimdimp); extern int ncdimdef(int ncid, const char *name, long len); extern int ncdimid(int ncid, const char *name); extern int ncdiminq(int ncid, int dimid, char *name, long *lenp); extern int ncdimrename(int ncid, int dimid, const char *name); extern int ncattput(int ncid, int varid, const char *name, nc_type xtype, int len, const void *op); extern int ncattinq(int ncid, int varid, const char *name, nc_type *xtypep, int *lenp); extern int ncattget(int ncid, int varid, const char *name, void *ip); extern int ncattcopy(int ncid_in, int varid_in, const char *name, int ncid_out, int varid_out); extern int ncattname(int ncid, int varid, int attnum, char *name); extern int ncattrename(int ncid, int varid, const char *name, const char *newname); extern int ncattdel(int ncid, int varid, const char *name); extern int ncvardef(int ncid, const char *name, nc_type xtype, int ndims, const int *dimidsp); extern int ncvarid(int ncid, const char *name); extern int ncvarinq(int ncid, int varid, char *name, nc_type *xtypep, int *ndimsp, int *dimidsp, int *nattsp); extern int ncvarput1(int ncid, int varid, const long *indexp, const void *op); extern int ncvarget1(int ncid, int varid, const long *indexp, void *ip); extern int ncvarput(int ncid, int varid, const long *startp, const long *countp, const void *op); extern int ncvarget(int ncid, int varid, const long *startp, const long *countp, void *ip); extern int ncvarputs(int ncid, int varid, const long *startp, const long *countp, const long *stridep, const void *op); extern int ncvargets(int ncid, int varid, const long *startp, const long *countp, const long *stridep, void *ip); extern int ncvarputg(int ncid, int varid, const long *startp, const long *countp, const long *stridep, const long *imapp, const void *op); extern int ncvargetg(int ncid, int varid, const long *startp, const long *countp, const long *stridep, const long *imapp, void *ip); extern int ncvarrename(int ncid, int varid, const char *name); extern int ncrecinq(int ncid, int *nrecvarsp, int *recvaridsp, long *recsizesp); extern int ncrecget(int ncid, long recnum, void **datap); extern int ncrecput(int ncid, long recnum, void *const *datap); } # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.cc" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['netcdf.h'] in ['/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language Cxx ================================================================================ TEST checkSharedLibrary from config.packages.netcdf(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.netcdf(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.exodusii(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.exodusii(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.MOAB(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.MOAB(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Chaco(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Chaco(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.openblas(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.openblas(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.fblaslapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.fblaslapack(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.fblaslapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.fblaslapack(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional fblaslapack Looking for FBLASLAPACK at git.fblaslapack, hg.fblaslapack or a directory starting with ['fblaslapack'] Found a copy of FBLASLAPACK in fblaslapack-3.4.2 Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -V Popping language FC Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -O0 /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.setCompilers -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 -mfp16-format=ieee /tmp/petsc-n3SpCv/config.setCompilers/conftest.F90 Possible ERROR while running compiler: exit code 256 stderr: gfortran: error: unrecognized command line option ‘-mfp16-format=ieee’ Source: program main end Rejecting compiler flag -mfp16-format=ieee due to nonzero status from link Rejecting compiler flag -mfp16-format=ieee due to gfortran: error: unrecognized command line option ‘-mfp16-format=ieee’ PETSc Error: No output file produced Popping language FC Pushing language FC Popping language FC Do not need to rebuild FBLASLAPACK Not checking for library in Download FBLASLAPACK: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for headers Download FBLASLAPACK: ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] ================================================================================ TEST checkSharedLibrary from config.packages.fblaslapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.fblaslapack(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.f2cblaslapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.f2cblaslapack(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.BlasLapack(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:332) TESTING: configureLibrary from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:332) ================================================================================ Checking for a functional BLAS and LAPACK in fblaslapack ================================================================================ TEST checkLib from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:103) TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:103) Checking for BLAS and LAPACK symbols Checking for functions [ddot_] in library ['/home/thl/petsc/fast_double/lib/libfblas.a'] ['libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ddot_(); static void _check_ddot_() { ddot_(); } int main() { _check_ddot_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib 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'-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgetrs_(); static void _check_dgetrs_() { dgetrs_(); } int main() { _check_dgetrs_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBFLAPACK" to "1" Popping language C Checking for functions [dgeev_] in library ['/home/thl/petsc/fast_double/lib/libflapack.a'] ['/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgeev_(); static void _check_dgeev_() { dgeev_(); } int main() { _check_dgeev_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBFLAPACK" to "1" Popping language C Found Fortran mangling on BLAS/LAPACK which is underscore Defined "BLASLAPACK_UNDERSCORE" to "1" ================================================================================ TEST check64BitBLASIndices from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:495) TESTING: check64BitBLASIndices from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:495) Check for and use 64bit integer blas ================================================================================ TEST checkESSL from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:412) TESTING: checkESSL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:412) Check for the IBM ESSL library Checking for functions [iessl] in library ['/home/thl/petsc/fast_double/lib/libflapack.a', '/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char iessl(); static void _check_iessl() { iessl(); } int main() { _check_iessl();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'iessl' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkPESSL from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:428) TESTING: checkPESSL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:428) Check for the IBM PESSL library - and error out - if used instead of ESSL Checking for functions [ipessl] in library ['/home/thl/petsc/fast_double/lib/libflapack.a', '/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', 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'-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ipessl(); static void _check_ipessl() { ipessl(); } int main() { _check_ipessl();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'ipessl' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkMKL from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:420) TESTING: checkMKL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:420) Check for Intel MKL library Checking for functions [mkl_set_num_threads] in library ['/home/thl/petsc/fast_double/lib/libflapack.a', '/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char mkl_set_num_threads(); static void _check_mkl_set_num_threads() { mkl_set_num_threads(); } int main() { _check_mkl_set_num_threads();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib 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-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'mkl_set_num_threads' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkMissing from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:453) TESTING: checkMissing from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:453) Check for missing LAPACK routines Checking for functions [dtrsen_ dgerfs_ dgges_ dtgsen_ dgesvd_ dgetrf_ dgetrs_ dgeev_ dgelss_ dsyev_ dsyevx_ dsygv_ dsygvx_ dpotrf_ dpotrs_ dstebz_ dpttrf_ dpttrs_ dstein_ dorgqr_ dgeqrf_ dgesv_ dhseqr_ dsteqr_] in library ['/home/thl/petsc/fast_double/lib/libflapack.a'] ['/home/thl/petsc/fast_double/lib/libfblas.a', '/home/thl/petsc/fast_double/lib/libflapack.a', '/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', 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'-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dtrsen_(); static void _check_dtrsen_() { dtrsen_(); } char dgerfs_(); static void _check_dgerfs_() { dgerfs_(); } char dgges_(); static void _check_dgges_() { dgges_(); } char dtgsen_(); static void _check_dtgsen_() { dtgsen_(); } char dgesvd_(); static void _check_dgesvd_() { dgesvd_(); } char dgetrf_(); static void _check_dgetrf_() { dgetrf_(); } char dgetrs_(); static void _check_dgetrs_() { dgetrs_(); } char dgeev_(); static void _check_dgeev_() { dgeev_(); } char dgelss_(); static void _check_dgelss_() { dgelss_(); } char dsyev_(); static void _check_dsyev_() { dsyev_(); } char dsyevx_(); static void _check_dsyevx_() { dsyevx_(); } char dsygv_(); static void _check_dsygv_() { dsygv_(); } char dsygvx_(); static void _check_dsygvx_() { dsygvx_(); } char dpotrf_(); static void _check_dpotrf_() { dpotrf_(); } char dpotrs_(); static void _check_dpotrs_() { dpotrs_(); } char dstebz_(); static void _check_dstebz_() { dstebz_(); } char dpttrf_(); static void _check_dpttrf_() { dpttrf_(); } char dpttrs_(); static void _check_dpttrs_() { dpttrs_(); } char dstein_(); static void _check_dstein_() { dstein_(); } char dorgqr_(); static void _check_dorgqr_() { dorgqr_(); } char dgeqrf_(); static void _check_dgeqrf_() { dgeqrf_(); } char dgesv_(); static void _check_dgesv_() { dgesv_(); } char dhseqr_(); static void _check_dhseqr_() { dhseqr_(); } char dsteqr_(); static void _check_dsteqr_() { dsteqr_(); } int main() { _check_dtrsen_(); _check_dgerfs_(); _check_dgges_(); _check_dtgsen_(); _check_dgesvd_(); _check_dgetrf_(); _check_dgetrs_(); _check_dgeev_(); _check_dgelss_(); _check_dsyev_(); _check_dsyevx_(); _check_dsygv_(); _check_dsygvx_(); _check_dpotrf_(); _check_dpotrs_(); _check_dstebz_(); _check_dpttrf_(); _check_dpttrs_(); _check_dstein_(); _check_dorgqr_(); _check_dgeqrf_(); _check_dgesv_(); _check_dhseqr_(); _check_dsteqr_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBFLAPACK" to "1" Popping language C ================================================================================ TEST checklsame from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:468) TESTING: checklsame from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:468) Do the BLAS/LAPACK libraries have a valid lsame() function with correction binding. Lion and xcode 4.2 do not Checking for functions [lsame_] in library ['/home/thl/petsc/fast_double/lib/libflapack.a', '/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char lsame_(); static void _check_lsame_() { lsame_(); } int main() { _check_lsame_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBFLAPACK" to "1" Defined "HAVE_LIBFBLAS" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBMPI_USEMPIF08" to "1" Defined "HAVE_LIBMPI_USEMPI_IGNORE_TKR" to "1" Defined "HAVE_LIBMPI_MPIFH" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBQUADMATH" to "1" Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" char *dgeev_(void); char* testroutine(void){return dgeev_(); }Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" char *dgeev_(void); char* testroutine(void){return dgeev_(); } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.setCompilers/libconftest.so -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.setCompilers/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lflapack -lfblas -lflapack -lfblas -lm -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl ================================================================================ TEST checksdotreturnsdouble from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/packages/BlasLapack.py:530) TESTING: checksdotreturnsdouble from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:530) Determines if BLAS sdot routine returns a float or a double Checking if sdot() returns a float or a double Pushing language C All intermediate test results are stored in /tmp/petsc-n3SpCv/config.packages.BlasLapack Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *output = fopen("runtimetestoutput","w"); extern float sdot_(int*,float*,int *,float*,int*); float x1[1] = {3.0}; int one1 = 1; float sdotresult = sdot_(&one1,x1,&one1,x1,&one1); fprintf(output, " '--known-sdot-returns-double=%d',\n",(sdotresult != 9.0)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest Executing: /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest Popping language C Checking if snrm() returns a float or a double Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { FILE *output = fopen("runtimetestoutput","w"); extern float snrm2_(int*,float*,int*); float x2[1] = {3.0}; int one2 = 1; float normresult = snrm2_(&one2,x2,&one2); fprintf(output, " '--known-snrm2-returns-double=%d',\n",(normresult != 3.0)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.packages.BlasLapack/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /home/thl/petsc/fast_double/lib/libfblas.a(snrm2.o):snrm2.f:function snrm2_: error: undefined reference to 'sqrtf' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.BlasLapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.BlasLapack(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST alternateConfigureLibrary from config.packages.sundials(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.sundials(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.spai(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.spai(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pARMS(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.pARMS(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.p4est(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.p4est(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mkl_cpardiso(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.mkl_cpardiso(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.fftw(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.fftw(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.elemental(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.elemental(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ml(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.ml(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.hypre(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.hypre(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mkl_pardiso(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.mkl_pardiso(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.SuperLU_MT(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.SuperLU_MT(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default Pushing language C ================================================================================ TEST checkDependencies from config.packages.SuperLU_DIST(/global/home/thl/petsc/config/BuildSystem/config/package.py:719) TESTING: checkDependencies from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:719) ================================================================================ TEST configureLibrary from config.packages.SuperLU_DIST(/global/home/thl/petsc/config/BuildSystem/config/package.py:744) TESTING: configureLibrary from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:744) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional SuperLU_DIST Looking for SUPERLU_DIST at git.superlu_dist, hg.superlu_dist or a directory starting with ['SuperLU_DIST', 'superlu_dist'] Could not locate an existing copy of SUPERLU_DIST: ['git.sowing', 'fblaslapack-3.4.2', 'zlib-1.2.11', 'git.metis', 'git.parmetis'] Downloading SuperLU_DIST =============================================================================== Trying to download git://https://github.com/xiaoyeli/superlu_dist for SUPERLU_DIST =============================================================================== Executing: git clone https://github.com/xiaoyeli/superlu_dist /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist stdout: Initialized empty Git repository in /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/.git/ Looking for SUPERLU_DIST at git.superlu_dist, hg.superlu_dist or a directory starting with ['SuperLU_DIST', 'superlu_dist'] Found a copy of SUPERLU_DIST in git.superlu_dist Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'xsdk-0.2.0-rc1^{commit}'] Executing: ['git', 'rev-parse', 'xsdk-0.2.0-rc1'] stdout: 5d8592ed0470d4d6c43f1336212be5253e55a79f Executing: ['git', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] Executing: ['git', 'checkout', '-f', '5d8592ed0470d4d6c43f1336212be5253e55a79f'] Pushing language C Popping language C Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Have to rebuild SUPERLU_DIST, /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/superlu_dist.petscconf != /home/thl/petsc/fast_double/lib/petsc/conf/pkg.conf.superlu_dist =============================================================================== Configuring SUPERLU_DIST with cmake, this may take several minutes =============================================================================== Executing: cd /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake .. -DCMAKE_INSTALL_PREFIX=/home/thl/petsc/fast_double -DCMAKE_VERBOSE_MAKEFILE=1 -DCMAKE_C_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" -DCMAKE_AR=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar -DCMAKE_RANLIB=/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib -DCMAKE_C_FLAGS:STRING="-fPIC -fstack-protector -O3 -std=c99 -DAdd_" -DCMAKE_CXX_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx" -DCMAKE_CXX_FLAGS:STRING="-fstack-protector -g -O -fPIC -DAdd_" -DCMAKE_Fortran_COMPILER="/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90" -DCMAKE_Fortran_FLAGS:STRING="-fPIC -ffree-line-length-0 -O3" -DBUILD_SHARED_LIBS=on -DCMAKE_DISABLE_FIND_PACKAGE_OpenMP=TRUE -DUSE_XSDK_DEFAULTS=YES -DTPL_BLAS_LIBRARIES="-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib 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/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/SRC && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_symlink_library libsuperlu_dist.so.5.1.3 libsuperlu_dist.so.5 libsuperlu_dist.so gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' [100%] Built target superlu_dist gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist -B/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /usr/bin/gmake -f SRC/CMakeFiles/superlu_dist.dir/build.make SRC/CMakeFiles/superlu_dist.dir/depend gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' cd /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_depends "Unix Makefiles" /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/SRC /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/SRC /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/SRC/CMakeFiles/superlu_dist.dir/DependInfo.cmake --color= gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /usr/bin/gmake -f SRC/CMakeFiles/superlu_dist.dir/build.make SRC/CMakeFiles/superlu_dist.dir/build gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' gmake[2]: Nothing to be done for `SRC/CMakeFiles/superlu_dist.dir/build'. gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' [100%] Built target superlu_dist gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles 0 /usr/bin/gmake -f CMakeFiles/Makefile2 preinstall gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' gmake[1]: Nothing to be done for `preinstall'. gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' Install the project... /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -P cmake_install.cmake -- Install configuration: "DEBUG" -- Installing: /home/thl/petsc/fast_double/lib/libsuperlu_dist.so.5.1.3 -- Installing: /home/thl/petsc/fast_double/lib/libsuperlu_dist.so.5 -- Installing: /home/thl/petsc/fast_double/lib/libsuperlu_dist.so -- Set runtime path of "/home/thl/petsc/fast_double/lib/libsuperlu_dist.so.5.1.3" to "/home/thl/petsc/fast_double/lib" -- Installing: /home/thl/petsc/fast_double/include/Cnames.h -- Installing: /home/thl/petsc/fast_double/include/cublas_utils.h -- Installing: /home/thl/petsc/fast_double/include/dcomplex.h -- Installing: /home/thl/petsc/fast_double/include/machines.h -- Installing: /home/thl/petsc/fast_double/include/psymbfact.h -- Installing: /home/thl/petsc/fast_double/include/superlu_defs.h -- Installing: /home/thl/petsc/fast_double/include/superlu_enum_consts.h -- Installing: /home/thl/petsc/fast_double/include/supermatrix.h -- Installing: /home/thl/petsc/fast_double/include/util_dist.h -- Installing: /home/thl/petsc/fast_double/include/superlu_ddefs.h -- Installing: /home/thl/petsc/fast_double/include/superlu_zdefs.h ********Output of running make on SUPERLU_DIST follows ******* -- The C compiler identification is GNU 4.9.3 -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- The Fortran compiler identification is GNU 4.9.3 -- Check for working Fortran compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -- Check for working Fortran compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -- works -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Checking whether /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 supports Fortran 90 -- Checking whether /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 supports Fortran 90 -- yes -- Found MPI_C: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/libmpi.so -- Found MPI_Fortran: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/libmpi_usempif08.so;/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/libmpi_usempi_ignore_tkr.so;/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/libmpi_mpifh.so;/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib/libmpi.so -- Configuring done -- Generating done -- Build files have been written to: /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build Process XSDK defaults ... USE_XSDK_DEFAULTS = 'YES' -- XSDK: Setting default CMAKE_BUILD_TYPE=DEBUG -- SuperLU_DIST will be built as a shared library. -- Using TPL_BLAS_LIBRARIES='-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath' -- Enabled support for PARMETIS /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist -B/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /usr/bin/gmake -f SRC/CMakeFiles/superlu_dist.dir/build.make SRC/CMakeFiles/superlu_dist.dir/depend gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' cd /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_depends "Unix Makefiles" 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-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis -lm -Wl,-rpath,::::::::::::::::::::::::::::::: cd /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/SRC && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_symlink_library libsuperlu_dist.so.5.1.3 libsuperlu_dist.so.5 libsuperlu_dist.so gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' [100%] Built target superlu_dist gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -H/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist -B/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build --check-build-system CMakeFiles/Makefile.cmake 0 /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles/progress.marks /usr/bin/gmake -f CMakeFiles/Makefile2 all gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /usr/bin/gmake -f SRC/CMakeFiles/superlu_dist.dir/build.make SRC/CMakeFiles/superlu_dist.dir/depend gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' cd /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build && /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_depends "Unix Makefiles" /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/SRC /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/SRC /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/SRC/CMakeFiles/superlu_dist.dir/DependInfo.cmake --color= gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /usr/bin/gmake -f SRC/CMakeFiles/superlu_dist.dir/build.make SRC/CMakeFiles/superlu_dist.dir/build gmake[2]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' gmake[2]: Nothing to be done for `SRC/CMakeFiles/superlu_dist.dir/build'. gmake[2]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' [100%] Built target superlu_dist gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -E cmake_progress_start /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build/CMakeFiles 0 /usr/bin/gmake -f CMakeFiles/Makefile2 preinstall gmake[1]: Entering directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' gmake[1]: Nothing to be done for `preinstall'. gmake[1]: Leaving directory `/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/build' Install the project... /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake -P cmake_install.cmake -- Install configuration: "DEBUG" -- Installing: /home/thl/petsc/fast_double/lib/libsuperlu_dist.so.5.1.3 -- Installing: /home/thl/petsc/fast_double/lib/libsuperlu_dist.so.5 -- Installing: /home/thl/petsc/fast_double/lib/libsuperlu_dist.so -- Set runtime path of "/home/thl/petsc/fast_double/lib/libsuperlu_dist.so.5.1.3" to "/home/thl/petsc/fast_double/lib" -- Installing: /home/thl/petsc/fast_double/include/Cnames.h -- Installing: /home/thl/petsc/fast_double/include/cublas_utils.h -- Installing: /home/thl/petsc/fast_double/include/dcomplex.h -- Installing: /home/thl/petsc/fast_double/include/machines.h -- Installing: /home/thl/petsc/fast_double/include/psymbfact.h -- Installing: /home/thl/petsc/fast_double/include/superlu_defs.h -- Installing: /home/thl/petsc/fast_double/include/superlu_enum_consts.h -- Installing: /home/thl/petsc/fast_double/include/supermatrix.h -- Installing: /home/thl/petsc/fast_double/include/util_dist.h -- Installing: /home/thl/petsc/fast_double/include/superlu_ddefs.h -- Installing: /home/thl/petsc/fast_double/include/superlu_zdefs.h/global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/SRC/pdgstrf.c: In function ‘pdgstrf’: /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/SRC/pdgstrf.c:400:5: warning: ‘MPI_Attr_get’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1227): MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0 [-Wdeprecated-declarations] MPI_Attr_get (MPI_COMM_WORLD, MPI_TAG_UB, &attr_val, &flag); ^ /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/SRC/pzgstrf.c: In function ‘pzgstrf’: /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist/SRC/pzgstrf.c:400:5: warning: ‘MPI_Attr_get’ is deprecated (declared at /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h:1227): MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0 [-Wdeprecated-declarations] MPI_Attr_get (MPI_COMM_WORLD, MPI_TAG_UB, &attr_val, &flag); ^ ********End of Output of running make on SUPERLU_DIST ******* Checking for library in Download SUPERLU_DIST: ['/home/thl/petsc/fast_double/lib/libsuperlu_dist.a'] Contents: ['include', 'lib', 'bin', 'externalpackages', 'share', 'initial_cache_file.cmake', 'CMakeFiles', 'cmake_install.cmake', 'CMakeCache.txt', 'Makefile'] ================================================================================ TEST check from config.libraries(/global/home/thl/petsc/config/BuildSystem/config/libraries.py:159) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:159) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [set_default_options_dist] in library ['/home/thl/petsc/fast_double/lib/libsuperlu_dist.a'] ['/home/thl/petsc/fast_double/lib/libparmetis.a', '/home/thl/petsc/fast_double/lib/libmetis.a', '/home/thl/petsc/fast_double/lib/libflapack.a', '/home/thl/petsc/fast_double/lib/libfblas.a', 'libm.a', '-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char set_default_options_dist(); static void _check_set_default_options_dist() { set_default_options_dist(); } int main() { _check_set_default_options_dist();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lsuperlu_dist -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_LIBSUPERLU_DIST" to "1" Popping language C Checking for headers Download SUPERLU_DIST: ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Pushing language C ================================================================================ TEST checkInclude from config.headers(/global/home/thl/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['superlu_ddefs.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Checking include with compiler flags var CPPFLAGS ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '/home/thl/petsc/fast_double/include', '/home/thl/petsc/fast_double/include'] Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.headers -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -I/home/thl/petsc/fast_double/include -I/home/thl/petsc/fast_double/include /tmp/petsc-n3SpCv/config.headers/conftest.c stdout: # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/tmp/petsc-n3SpCv/config.headers/conftest.c" # 1 "/tmp/petsc-n3SpCv/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/tmp/petsc-n3SpCv/config.headers/conffix.h" 1 # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 # 1 "/home/thl/petsc/fast_double/include/superlu_ddefs.h" 1 # 33 "/home/thl/petsc/fast_double/include/superlu_ddefs.h" # 1 "/home/thl/petsc/fast_double/include/superlu_defs.h" 1 # 40 "/home/thl/petsc/fast_double/include/superlu_defs.h" # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 1 # 225 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 147 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long int ptrdiff_t; # 212 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef long unsigned int size_t; # 324 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 3 4 typedef int wchar_t; # 226 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 258 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" # 1 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi_portable_platform.h" 1 # 259 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" 2 # 323 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef ptrdiff_t MPI_Aint; typedef long long MPI_Offset; typedef long long MPI_Count; typedef struct ompi_communicator_t *MPI_Comm; typedef struct ompi_datatype_t *MPI_Datatype; typedef struct ompi_errhandler_t *MPI_Errhandler; typedef struct ompi_file_t *MPI_File; typedef struct ompi_group_t *MPI_Group; typedef struct ompi_info_t *MPI_Info; typedef struct ompi_op_t *MPI_Op; typedef struct ompi_request_t *MPI_Request; typedef struct ompi_message_t *MPI_Message; typedef struct ompi_status_public_t MPI_Status; typedef struct ompi_win_t *MPI_Win; typedef struct mca_base_var_enum_t *MPI_T_enum; typedef struct ompi_mpit_cvar_handle_t *MPI_T_cvar_handle; typedef struct mca_base_pvar_handle_t *MPI_T_pvar_handle; typedef struct mca_base_pvar_session_t *MPI_T_pvar_session; struct ompi_status_public_t { int MPI_SOURCE; int MPI_TAG; int MPI_ERROR; int _cancelled; size_t _ucount; }; typedef struct ompi_status_public_t ompi_status_public_t; # 370 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" typedef int (MPI_Copy_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Delete_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Datarep_extent_function)(MPI_Datatype, MPI_Aint *, void *); typedef int (MPI_Datarep_conversion_function)(void *, MPI_Datatype, int, void *, MPI_Offset, void *); typedef void (MPI_Comm_errhandler_function)(MPI_Comm *, int *, ...); typedef MPI_Comm_errhandler_function MPI_Comm_errhandler_fn __attribute__((__deprecated__("MPI_Comm_errhandler_fn was deprecated in MPI-2.2; use MPI_Comm_errhandler_function instead"))); typedef void (ompi_file_errhandler_fn)(MPI_File *, int *, ...); typedef ompi_file_errhandler_fn MPI_File_errhandler_fn __attribute__((__deprecated__("MPI_File_errhandler_fn was deprecated in MPI-2.2; use MPI_File_errhandler_function instead"))); typedef ompi_file_errhandler_fn MPI_File_errhandler_function; typedef void (MPI_Win_errhandler_function)(MPI_Win *, int *, ...); typedef MPI_Win_errhandler_function MPI_Win_errhandler_fn __attribute__((__deprecated__("MPI_Win_errhandler_fn was deprecated in MPI-2.2; use MPI_Win_errhandler_function instead"))); typedef void (MPI_Handler_function)(MPI_Comm *, int *, ...); typedef void (MPI_User_function)(void *, void *, int *, MPI_Datatype *); typedef int (MPI_Comm_copy_attr_function)(MPI_Comm, int, void *, void *, void *, int *); typedef int (MPI_Comm_delete_attr_function)(MPI_Comm, int, void *, void *); typedef int (MPI_Type_copy_attr_function)(MPI_Datatype, int, void *, void *, void *, int *); typedef int (MPI_Type_delete_attr_function)(MPI_Datatype, int, void *, void *); typedef int (MPI_Win_copy_attr_function)(MPI_Win, int, void *, void *, void *, int *); typedef int (MPI_Win_delete_attr_function)(MPI_Win, int, void *, void *); typedef int (MPI_Grequest_query_function)(void *, MPI_Status *); typedef int (MPI_Grequest_free_function)(void *); typedef int (MPI_Grequest_cancel_function)(void *, int); # 506 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_TAG_UB, MPI_HOST, MPI_IO, MPI_WTIME_IS_GLOBAL, MPI_APPNUM, MPI_LASTUSEDCODE, MPI_UNIVERSE_SIZE, MPI_WIN_BASE, MPI_WIN_SIZE, MPI_WIN_DISP_UNIT, MPI_WIN_CREATE_FLAVOR, MPI_WIN_MODEL, IMPI_CLIENT_SIZE, IMPI_CLIENT_COLOR, IMPI_HOST_SIZE, IMPI_HOST_COLOR }; # 623 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" enum { MPI_IDENT, MPI_CONGRUENT, MPI_SIMILAR, MPI_UNEQUAL }; enum { MPI_THREAD_SINGLE, MPI_THREAD_FUNNELED, MPI_THREAD_SERIALIZED, MPI_THREAD_MULTIPLE }; enum { MPI_COMBINER_NAMED, MPI_COMBINER_DUP, MPI_COMBINER_CONTIGUOUS, MPI_COMBINER_VECTOR, MPI_COMBINER_HVECTOR_INTEGER, MPI_COMBINER_HVECTOR, MPI_COMBINER_INDEXED, MPI_COMBINER_HINDEXED_INTEGER, MPI_COMBINER_HINDEXED, MPI_COMBINER_INDEXED_BLOCK, MPI_COMBINER_STRUCT_INTEGER, MPI_COMBINER_STRUCT, MPI_COMBINER_SUBARRAY, MPI_COMBINER_DARRAY, MPI_COMBINER_F90_REAL, MPI_COMBINER_F90_COMPLEX, MPI_COMBINER_F90_INTEGER, MPI_COMBINER_RESIZED, MPI_COMBINER_HINDEXED_BLOCK }; enum { MPI_COMM_TYPE_SHARED }; enum { MPI_T_VERBOSITY_USER_BASIC, MPI_T_VERBOSITY_USER_DETAIL, MPI_T_VERBOSITY_USER_ALL, MPI_T_VERBOSITY_TUNER_BASIC, MPI_T_VERBOSITY_TUNER_DETAIL, MPI_T_VERBOSITY_TUNER_ALL, MPI_T_VERBOSITY_MPIDEV_BASIC, MPI_T_VERBOSITY_MPIDEV_DETAIL, MPI_T_VERBOSITY_MPIDEV_ALL }; enum { MPI_T_SCOPE_CONSTANT, MPI_T_SCOPE_READONLY, MPI_T_SCOPE_LOCAL, MPI_T_SCOPE_GROUP, MPI_T_SCOPE_GROUP_EQ, MPI_T_SCOPE_ALL, MPI_T_SCOPE_ALL_EQ }; enum { MPI_T_BIND_NO_OBJECT, MPI_T_BIND_MPI_COMM, MPI_T_BIND_MPI_DATATYPE, MPI_T_BIND_MPI_ERRHANDLER, MPI_T_BIND_MPI_FILE, MPI_T_BIND_MPI_GROUP, MPI_T_BIND_MPI_OP, MPI_T_BIND_MPI_REQUEST, MPI_T_BIND_MPI_WIN, MPI_T_BIND_MPI_MESSAGE, MPI_T_BIND_MPI_INFO }; enum { MPI_T_PVAR_CLASS_STATE, MPI_T_PVAR_CLASS_LEVEL, MPI_T_PVAR_CLASS_SIZE, MPI_T_PVAR_CLASS_PERCENTAGE, MPI_T_PVAR_CLASS_HIGHWATERMARK, MPI_T_PVAR_CLASS_LOWWATERMARK, MPI_T_PVAR_CLASS_COUNTER, MPI_T_PVAR_CLASS_AGGREGATE, MPI_T_PVAR_CLASS_TIMER, MPI_T_PVAR_CLASS_GENERIC }; # 812 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_DELETE_FN( MPI_Datatype datatype, int type_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_NULL_COPY_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_TYPE_DUP_FN( MPI_Datatype datatype, int type_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_COMM_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_DELETE_FN( MPI_Comm comm, int comm_keyval, void* attribute_val_out, void* extra_state ) __attribute__((__deprecated__("MPI_NULL_DELETE_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_NULL_COPY_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_NULL_COPY_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_DUP_FN( MPI_Comm comm, int comm_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ) __attribute__((__deprecated__("MPI_DUP_FN is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_DELETE_FN( MPI_Win window, int win_keyval, void* attribute_val_out, void* extra_state ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_NULL_COPY_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); __attribute__((visibility("default"))) int OMPI_C_MPI_WIN_DUP_FN( MPI_Win window, int win_keyval, void* extra_state, void* attribute_val_in, void* attribute_val_out, int* flag ); # 882 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_world; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_self; __attribute__((visibility("default"))) extern struct ompi_predefined_communicator_t ompi_mpi_comm_null; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_empty; __attribute__((visibility("default"))) extern struct ompi_predefined_group_t ompi_mpi_group_null; __attribute__((visibility("default"))) extern struct ompi_predefined_request_t ompi_request_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_null; __attribute__((visibility("default"))) extern struct ompi_predefined_message_t ompi_message_no_proc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_null; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_min; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_max; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_sum; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_prod; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_land; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_band; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_lxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_bxor; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_maxloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_minloc; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_replace; __attribute__((visibility("default"))) extern struct ompi_predefined_op_t ompi_mpi_op_no_op; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_datatype_null; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_lb __attribute__((__deprecated__("MPI_LB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ub __attribute__((__deprecated__("MPI_UB is deprecated in MPI-2.0"))); __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_signed_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_char; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_byte; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_short; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_unsigned_long_long; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_double; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_wchar; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_packed; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cxx_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_character; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_ldblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2integer; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2real; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblprec; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2cplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_2dblcplex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_float_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_double_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_longdbl_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_short_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_long_int; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_logical8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer1; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_integer16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real2; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real4; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_real16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex8; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex16; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_complex32; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint8_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint16_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint32_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_int64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_uint64_t; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_aint; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_offset; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_count; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_bool; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_float_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_datatype_t ompi_mpi_c_long_double_complex; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errhandler_null; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_are_fatal; __attribute__((visibility("default"))) extern struct ompi_predefined_errhandler_t ompi_mpi_errors_return; __attribute__((visibility("default"))) extern struct ompi_predefined_win_t ompi_mpi_win_null; __attribute__((visibility("default"))) extern struct ompi_predefined_file_t ompi_mpi_file_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_null; __attribute__((visibility("default"))) extern struct ompi_predefined_info_t ompi_mpi_info_env; __attribute__((visibility("default"))) extern int *MPI_F_STATUS_IGNORE; __attribute__((visibility("default"))) extern int *MPI_F_STATUSES_IGNORE; # 1180 "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include/mpi.h" __attribute__((visibility("default"))) int MPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int MPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int MPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int MPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int MPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int MPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int MPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int MPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int MPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int MPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int MPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int MPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int MPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int MPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int MPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int MPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int MPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int MPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm MPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int MPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int MPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int MPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int MPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int MPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int MPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int MPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int MPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int MPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int MPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int MPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int MPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int MPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int MPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int MPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int MPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int MPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler MPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int MPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int MPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File MPI_File_f2c(int file); __attribute__((visibility("default"))) int MPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int MPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int MPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int MPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int MPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int MPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int MPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int MPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int MPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int MPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int MPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int MPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int MPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int MPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int MPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int MPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int MPI_Finalize(void); __attribute__((visibility("default"))) int MPI_Finalized(int *flag); __attribute__((visibility("default"))) int MPI_Free_mem(void *base); __attribute__((visibility("default"))) int MPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int MPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int MPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int MPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int MPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int MPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int MPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int MPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int MPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int MPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int MPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int MPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int MPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int MPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int MPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int MPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group MPI_Group_f2c(int group); __attribute__((visibility("default"))) int MPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int MPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int MPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int MPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int MPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int MPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int MPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int MPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info MPI_Info_f2c(int info); __attribute__((visibility("default"))) int MPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int MPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int MPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int MPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int MPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int MPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int MPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int MPI_Initialized(int *flag); __attribute__((visibility("default"))) int MPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int MPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int MPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int MPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int MPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message MPI_Message_f2c(int message); __attribute__((visibility("default"))) int MPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int MPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int MPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int MPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op MPI_Op_f2c(int op); __attribute__((visibility("default"))) int MPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int MPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int MPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int MPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int MPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int MPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int MPI_Query_thread(int *provided); __attribute__((visibility("default"))) int MPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op op); __attribute__((visibility("default"))) int MPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int MPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request MPI_Request_f2c(int request); __attribute__((visibility("default"))) int MPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int MPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int MPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int MPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int MPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int MPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int MPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int MPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int MPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int MPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int MPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int MPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype MPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int MPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int MPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int MPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int MPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int MPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int MPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int MPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int MPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int MPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int MPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int MPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int MPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int MPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int MPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int MPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int MPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int MPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status *array_of_statuses); __attribute__((visibility("default"))) int MPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int MPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int MPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int MPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int MPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int MPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int MPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win MPI_Win_f2c(int win); __attribute__((visibility("default"))) int MPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int MPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int MPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int MPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int MPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int MPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int MPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int MPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int MPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int MPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int MPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int MPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int MPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int MPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int MPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double MPI_Wtick(void); __attribute__((visibility("default"))) double MPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_Abort(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Add_error_class(int *errorclass); __attribute__((visibility("default"))) int PMPI_Add_error_code(int errorclass, int *errorcode); __attribute__((visibility("default"))) int PMPI_Add_error_string(int errorcode, const char *string); __attribute__((visibility("default"))) int PMPI_Address(void *location, MPI_Aint *address) __attribute__((__deprecated__("MPI_Address is superseded by MPI_Get_address in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alloc_mem(MPI_Aint size, MPI_Info info, void *baseptr); __attribute__((visibility("default"))) int PMPI_Allreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iallreduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Alltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ialltoallw(const void *sendbuf, const int sendcounts[], const int sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const int rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Attr_delete(MPI_Comm comm, int keyval) __attribute__((__deprecated__("MPI_Attr_delete is superseded by MPI_Comm_delete_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Attr_get(MPI_Comm comm, int keyval, void *attribute_val, int *flag) __attribute__((__deprecated__("MPI_Attr_get is superseded by MPI_Comm_get_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Dist_graph_create(MPI_Comm comm_old, int n, const int nodes[], const int degrees[], const int targets[], const int weights[], MPI_Info info, int reorder, MPI_Comm * newcomm); __attribute__((visibility("default"))) int PMPI_Dist_graph_create_adjacent(MPI_Comm comm_old, int indegree, const int sources[], const int sourceweights[], int outdegree, const int destinations[], const int destweights[], MPI_Info info, int reorder, MPI_Comm *comm_dist_graph); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors(MPI_Comm comm, int maxindegree, int sources[], int sourceweights[], int maxoutdegree, int destinations[], int destweights[]); __attribute__((visibility("default"))) int PMPI_Dist_graph_neighbors_count(MPI_Comm comm, int *inneighbors, int *outneighbors, int *weighted); __attribute__((visibility("default"))) int PMPI_Attr_put(MPI_Comm comm, int keyval, void *attribute_val) __attribute__((__deprecated__("MPI_Attr_put is superseded by MPI_Comm_set_attr in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Barrier(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibarrier(MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ibcast(void *buffer, int count, MPI_Datatype datatype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Bsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Bsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Buffer_attach(void *buffer, int size); __attribute__((visibility("default"))) int PMPI_Buffer_detach(void *buffer, int *size); __attribute__((visibility("default"))) int PMPI_Cancel(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Cart_coords(MPI_Comm comm, int rank, int maxdims, int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_create(MPI_Comm old_comm, int ndims, const int dims[], const int periods[], int reorder, MPI_Comm *comm_cart); __attribute__((visibility("default"))) int PMPI_Cart_get(MPI_Comm comm, int maxdims, int dims[], int periods[], int coords[]); __attribute__((visibility("default"))) int PMPI_Cart_map(MPI_Comm comm, int ndims, const int dims[], const int periods[], int *newrank); __attribute__((visibility("default"))) int PMPI_Cart_rank(MPI_Comm comm, const int coords[], int *rank); __attribute__((visibility("default"))) int PMPI_Cart_shift(MPI_Comm comm, int direction, int disp, int *rank_source, int *rank_dest); __attribute__((visibility("default"))) int PMPI_Cart_sub(MPI_Comm comm, const int remain_dims[], MPI_Comm *new_comm); __attribute__((visibility("default"))) int PMPI_Cartdim_get(MPI_Comm comm, int *ndims); __attribute__((visibility("default"))) int PMPI_Close_port(const char *port_name); __attribute__((visibility("default"))) int PMPI_Comm_accept(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_c2f(MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Comm_call_errhandler(MPI_Comm comm, int errorcode); __attribute__((visibility("default"))) int PMPI_Comm_compare(MPI_Comm comm1, MPI_Comm comm2, int *result); __attribute__((visibility("default"))) int PMPI_Comm_connect(const char *port_name, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create_errhandler(MPI_Comm_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Comm_create_keyval(MPI_Comm_copy_attr_function *comm_copy_attr_fn, MPI_Comm_delete_attr_function *comm_delete_attr_fn, int *comm_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Comm_create_group(MPI_Comm comm, MPI_Group group, int tag, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_create(MPI_Comm comm, MPI_Group group, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_delete_attr(MPI_Comm comm, int comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_disconnect(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_dup(MPI_Comm comm, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_idup(MPI_Comm comm, MPI_Comm *newcomm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Comm_dup_with_info(MPI_Comm comm, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) MPI_Comm PMPI_Comm_f2c(int comm); __attribute__((visibility("default"))) int PMPI_Comm_free_keyval(int *comm_keyval); __attribute__((visibility("default"))) int PMPI_Comm_free(MPI_Comm *comm); __attribute__((visibility("default"))) int PMPI_Comm_get_attr(MPI_Comm comm, int comm_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Comm_get_errhandler(MPI_Comm comm, MPI_Errhandler *erhandler); __attribute__((visibility("default"))) int PMPI_Comm_get_info(MPI_Comm comm, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Comm_get_name(MPI_Comm comm, char *comm_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Comm_get_parent(MPI_Comm *parent); __attribute__((visibility("default"))) int PMPI_Comm_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_join(int fd, MPI_Comm *intercomm); __attribute__((visibility("default"))) int PMPI_Comm_rank(MPI_Comm comm, int *rank); __attribute__((visibility("default"))) int PMPI_Comm_remote_group(MPI_Comm comm, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Comm_remote_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_set_attr(MPI_Comm comm, int comm_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Comm_set_errhandler(MPI_Comm comm, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Comm_set_info(MPI_Comm comm, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Comm_set_name(MPI_Comm comm, const char *comm_name); __attribute__((visibility("default"))) int PMPI_Comm_size(MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Comm_spawn(const char *command, char *argv[], int maxprocs, MPI_Info info, int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_spawn_multiple(int count, char *array_of_commands[], char **array_of_argv[], const int array_of_maxprocs[], const MPI_Info array_of_info[], int root, MPI_Comm comm, MPI_Comm *intercomm, int array_of_errcodes[]); __attribute__((visibility("default"))) int PMPI_Comm_split(MPI_Comm comm, int color, int key, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_split_type(MPI_Comm comm, int split_type, int key, MPI_Info info, MPI_Comm *newcomm); __attribute__((visibility("default"))) int PMPI_Comm_test_inter(MPI_Comm comm, int *flag); __attribute__((visibility("default"))) int PMPI_Compare_and_swap(const void *origin_addr, const void *compare_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Dims_create(int nnodes, int ndims, int dims[]); __attribute__((visibility("default"))) int PMPI_Errhandler_c2f(MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_create(MPI_Handler_function *function, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_create is superseded by MPI_Comm_create_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) MPI_Errhandler PMPI_Errhandler_f2c(int errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_free(MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Errhandler_get(MPI_Comm comm, MPI_Errhandler *errhandler) __attribute__((__deprecated__("MPI_Errhandler_get is superseded by MPI_Comm_get_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Errhandler_set(MPI_Comm comm, MPI_Errhandler errhandler) __attribute__((__deprecated__("MPI_Errhandler_set is superseded by MPI_Comm_set_errhandler in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Error_class(int errorcode, int *errorclass); __attribute__((visibility("default"))) int PMPI_Error_string(int errorcode, char *string, int *resultlen); __attribute__((visibility("default"))) int PMPI_Exscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Fetch_and_op(const void *origin_addr, void *result_addr, MPI_Datatype datatype, int target_rank, MPI_Aint target_disp, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Iexscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_c2f(MPI_File file); __attribute__((visibility("default"))) MPI_File PMPI_File_f2c(int file); __attribute__((visibility("default"))) int PMPI_File_call_errhandler(MPI_File fh, int errorcode); __attribute__((visibility("default"))) int PMPI_File_create_errhandler(MPI_File_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_set_errhandler( MPI_File file, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_File_get_errhandler( MPI_File file, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_File_open(MPI_Comm comm, const char *filename, int amode, MPI_Info info, MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_close(MPI_File *fh); __attribute__((visibility("default"))) int PMPI_File_delete(const char *filename, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_set_size(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_preallocate(MPI_File fh, MPI_Offset size); __attribute__((visibility("default"))) int PMPI_File_get_size(MPI_File fh, MPI_Offset *size); __attribute__((visibility("default"))) int PMPI_File_get_group(MPI_File fh, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_File_get_amode(MPI_File fh, int *amode); __attribute__((visibility("default"))) int PMPI_File_set_info(MPI_File fh, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_info(MPI_File fh, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_File_set_view(MPI_File fh, MPI_Offset disp, MPI_Datatype etype, MPI_Datatype filetype, const char *datarep, MPI_Info info); __attribute__((visibility("default"))) int PMPI_File_get_view(MPI_File fh, MPI_Offset *disp, MPI_Datatype *etype, MPI_Datatype *filetype, char *datarep); __attribute__((visibility("default"))) int PMPI_File_read_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_at_all(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_at(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_at(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_seek(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_get_byte_offset(MPI_File fh, MPI_Offset offset, MPI_Offset *disp); __attribute__((visibility("default"))) int PMPI_File_read_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_iread_shared(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_iwrite_shared(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_File_read_ordered(MPI_File fh, void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered(MPI_File fh, const void *buf, int count, MPI_Datatype datatype, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_seek_shared(MPI_File fh, MPI_Offset offset, int whence); __attribute__((visibility("default"))) int PMPI_File_get_position_shared(MPI_File fh, MPI_Offset *offset); __attribute__((visibility("default"))) int PMPI_File_read_at_all_begin(MPI_File fh, MPI_Offset offset, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_at_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_at_all_begin(MPI_File fh, MPI_Offset offset, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_at_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_all_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_all_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_all_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_all_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_read_ordered_begin(MPI_File fh, void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_read_ordered_end(MPI_File fh, void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_write_ordered_begin(MPI_File fh, const void *buf, int count, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_File_write_ordered_end(MPI_File fh, const void *buf, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_File_get_type_extent(MPI_File fh, MPI_Datatype datatype, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_File_set_atomicity(MPI_File fh, int flag); __attribute__((visibility("default"))) int PMPI_File_get_atomicity(MPI_File fh, int *flag); __attribute__((visibility("default"))) int PMPI_File_sync(MPI_File fh); __attribute__((visibility("default"))) int PMPI_Finalize(void); __attribute__((visibility("default"))) int PMPI_Finalized(int *flag); __attribute__((visibility("default"))) int PMPI_Free_mem(void *base); __attribute__((visibility("default"))) int PMPI_Gather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Gatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Igatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Get_address(const void *location, MPI_Aint *address); __attribute__((visibility("default"))) int PMPI_Get_count(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements(const MPI_Status *status, MPI_Datatype datatype, int *count); __attribute__((visibility("default"))) int PMPI_Get_elements_x(const MPI_Status *status, MPI_Datatype datatype, MPI_Count *count); __attribute__((visibility("default"))) int PMPI_Get(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Get_library_version(char *version, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_processor_name(char *name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Get_version(int *version, int *subversion); __attribute__((visibility("default"))) int PMPI_Graph_create(MPI_Comm comm_old, int nnodes, const int index[], const int edges[], int reorder, MPI_Comm *comm_graph); __attribute__((visibility("default"))) int PMPI_Graph_get(MPI_Comm comm, int maxindex, int maxedges, int index[], int edges[]); __attribute__((visibility("default"))) int PMPI_Graph_map(MPI_Comm comm, int nnodes, const int index[], const int edges[], int *newrank); __attribute__((visibility("default"))) int PMPI_Graph_neighbors_count(MPI_Comm comm, int rank, int *nneighbors); __attribute__((visibility("default"))) int PMPI_Graph_neighbors(MPI_Comm comm, int rank, int maxneighbors, int neighbors[]); __attribute__((visibility("default"))) int PMPI_Graphdims_get(MPI_Comm comm, int *nnodes, int *nedges); __attribute__((visibility("default"))) int PMPI_Grequest_complete(MPI_Request request); __attribute__((visibility("default"))) int PMPI_Grequest_start(MPI_Grequest_query_function *query_fn, MPI_Grequest_free_function *free_fn, MPI_Grequest_cancel_function *cancel_fn, void *extra_state, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Group_c2f(MPI_Group group); __attribute__((visibility("default"))) int PMPI_Group_compare(MPI_Group group1, MPI_Group group2, int *result); __attribute__((visibility("default"))) int PMPI_Group_difference(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_excl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) MPI_Group PMPI_Group_f2c(int group); __attribute__((visibility("default"))) int PMPI_Group_free(MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Group_incl(MPI_Group group, int n, const int ranks[], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_intersection(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_excl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_range_incl(MPI_Group group, int n, int ranges[][3], MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Group_rank(MPI_Group group, int *rank); __attribute__((visibility("default"))) int PMPI_Group_size(MPI_Group group, int *size); __attribute__((visibility("default"))) int PMPI_Group_translate_ranks(MPI_Group group1, int n, const int ranks1[], MPI_Group group2, int ranks2[]); __attribute__((visibility("default"))) int PMPI_Group_union(MPI_Group group1, MPI_Group group2, MPI_Group *newgroup); __attribute__((visibility("default"))) int PMPI_Ibsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Improbe(int source, int tag, MPI_Comm comm, int *flag, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Imrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Info_c2f(MPI_Info info); __attribute__((visibility("default"))) int PMPI_Info_create(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_delete(MPI_Info info, const char *key); __attribute__((visibility("default"))) int PMPI_Info_dup(MPI_Info info, MPI_Info *newinfo); __attribute__((visibility("default"))) MPI_Info PMPI_Info_f2c(int info); __attribute__((visibility("default"))) int PMPI_Info_free(MPI_Info *info); __attribute__((visibility("default"))) int PMPI_Info_get(MPI_Info info, const char *key, int valuelen, char *value, int *flag); __attribute__((visibility("default"))) int PMPI_Info_get_nkeys(MPI_Info info, int *nkeys); __attribute__((visibility("default"))) int PMPI_Info_get_nthkey(MPI_Info info, int n, char *key); __attribute__((visibility("default"))) int PMPI_Info_get_valuelen(MPI_Info info, const char *key, int *valuelen, int *flag); __attribute__((visibility("default"))) int PMPI_Info_set(MPI_Info info, const char *key, const char *value); __attribute__((visibility("default"))) int PMPI_Init(int *argc, char ***argv); __attribute__((visibility("default"))) int PMPI_Initialized(int *flag); __attribute__((visibility("default"))) int PMPI_Init_thread(int *argc, char ***argv, int required, int *provided); __attribute__((visibility("default"))) int PMPI_Intercomm_create(MPI_Comm local_comm, int local_leader, MPI_Comm bridge_comm, int remote_leader, int tag, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Intercomm_merge(MPI_Comm intercomm, int high, MPI_Comm *newintercomm); __attribute__((visibility("default"))) int PMPI_Iprobe(int source, int tag, MPI_Comm comm, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Irecv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Irsend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Isend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Issend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Is_thread_main(int *flag); __attribute__((visibility("default"))) int PMPI_Keyval_create(MPI_Copy_function *copy_fn, MPI_Delete_function *delete_fn, int *keyval, void *extra_state) __attribute__((__deprecated__("MPI_Keyval_create is superseded by MPI_Comm_create_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Keyval_free(int *keyval) __attribute__((__deprecated__("MPI_Keyval_free is superseded by MPI_Comm_free_keyval in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Lookup_name(const char *service_name, MPI_Info info, char *port_name); __attribute__((visibility("default"))) int PMPI_Message_c2f(MPI_Message message); __attribute__((visibility("default"))) MPI_Message PMPI_Message_f2c(int message); __attribute__((visibility("default"))) int PMPI_Mprobe(int source, int tag, MPI_Comm comm, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Mrecv(void *buf, int count, MPI_Datatype type, MPI_Message *message, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Neighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgather(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_allgatherv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int displs[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoall(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallv(const void *sendbuf, const int sendcounts[], const int sdispls[], MPI_Datatype sendtype, void *recvbuf, const int recvcounts[], const int rdispls[], MPI_Datatype recvtype, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Neighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ineighbor_alltoallw(const void *sendbuf, const int sendcounts[], const MPI_Aint sdispls[], const MPI_Datatype sendtypes[], void *recvbuf, const int recvcounts[], const MPI_Aint rdispls[], const MPI_Datatype recvtypes[], MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Op_c2f(MPI_Op op); __attribute__((visibility("default"))) int PMPI_Op_commutative(MPI_Op op, int *commute); __attribute__((visibility("default"))) int PMPI_Op_create(MPI_User_function *function, int commute, MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Open_port(MPI_Info info, char *port_name); __attribute__((visibility("default"))) MPI_Op PMPI_Op_f2c(int op); __attribute__((visibility("default"))) int PMPI_Op_free(MPI_Op *op); __attribute__((visibility("default"))) int PMPI_Pack_external(const char datarep[], const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, MPI_Aint outsize, MPI_Aint *position); __attribute__((visibility("default"))) int PMPI_Pack_external_size(const char datarep[], int incount, MPI_Datatype datatype, MPI_Aint *size); __attribute__((visibility("default"))) int PMPI_Pack(const void *inbuf, int incount, MPI_Datatype datatype, void *outbuf, int outsize, int *position, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Pack_size(int incount, MPI_Datatype datatype, MPI_Comm comm, int *size); __attribute__((visibility("default"))) int PMPI_Pcontrol(const int level, ...); __attribute__((visibility("default"))) int PMPI_Probe(int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Publish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Put(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Query_thread(int *provided); __attribute__((visibility("default"))) int PMPI_Raccumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv_init(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Recv(void *buf, int count, MPI_Datatype datatype, int source, int tag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Reduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_local(const void *inbuf, void *inoutbuf, int count, MPI_Datatype datatype, MPI_Op); __attribute__((visibility("default"))) int PMPI_Reduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter(const void *sendbuf, void *recvbuf, const int recvcounts[], MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Reduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Ireduce_scatter_block(const void *sendbuf, void *recvbuf, int recvcount, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Register_datarep(const char *datarep, MPI_Datarep_conversion_function *read_conversion_fn, MPI_Datarep_conversion_function *write_conversion_fn, MPI_Datarep_extent_function *dtype_file_extent_fn, void *extra_state); __attribute__((visibility("default"))) int PMPI_Request_c2f(MPI_Request request); __attribute__((visibility("default"))) MPI_Request PMPI_Request_f2c(int request); __attribute__((visibility("default"))) int PMPI_Request_free(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Request_get_status(MPI_Request request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Rget(void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rget_accumulate(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, void *result_addr, int result_count, MPI_Datatype result_datatype, int target_rank, MPI_Aint target_disp, int target_count, MPI_Datatype target_datatype, MPI_Op op, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rput(const void *origin_addr, int origin_count, MPI_Datatype origin_datatype, int target_rank, MPI_Aint target_disp, int target_cout, MPI_Datatype target_datatype, MPI_Win win, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Rsend(const void *ibuf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Rsend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscan(const void *sendbuf, void *recvbuf, int count, MPI_Datatype datatype, MPI_Op op, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatter(const void *sendbuf, int sendcount, MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Scatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Iscatterv(const void *sendbuf, const int sendcounts[], const int displs[], MPI_Datatype sendtype, void *recvbuf, int recvcount, MPI_Datatype recvtype, int root, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Send(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Sendrecv(const void *sendbuf, int sendcount, MPI_Datatype sendtype, int dest, int sendtag, void *recvbuf, int recvcount, MPI_Datatype recvtype, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Sendrecv_replace(void * buf, int count, MPI_Datatype datatype, int dest, int sendtag, int source, int recvtag, MPI_Comm comm, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Ssend_init(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm, MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Ssend(const void *buf, int count, MPI_Datatype datatype, int dest, int tag, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Start(MPI_Request *request); __attribute__((visibility("default"))) int PMPI_Startall(int count, MPI_Request array_of_requests[]); __attribute__((visibility("default"))) int PMPI_Status_c2f(const MPI_Status *c_status, int *f_status); __attribute__((visibility("default"))) int PMPI_Status_f2c(const int *f_status, MPI_Status *c_status); __attribute__((visibility("default"))) int PMPI_Status_set_cancelled(MPI_Status *status, int flag); __attribute__((visibility("default"))) int PMPI_Status_set_elements(MPI_Status *status, MPI_Datatype datatype, int count); __attribute__((visibility("default"))) int PMPI_Status_set_elements_x(MPI_Status *status, MPI_Datatype datatype, MPI_Count count); __attribute__((visibility("default"))) int PMPI_Testall(int count, MPI_Request array_of_requests[], int *flag, MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Testany(int count, MPI_Request array_of_requests[], int *index, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test(MPI_Request *request, int *flag, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Test_cancelled(const MPI_Status *status, int *flag); __attribute__((visibility("default"))) int PMPI_Testsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Topo_test(MPI_Comm comm, int *status); __attribute__((visibility("default"))) int PMPI_Type_c2f(MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Type_commit(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_contiguous(int count, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_darray(int size, int rank, int ndims, const int gsize_array[], const int distrib_array[], const int darg_array[], const int psize_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_complex(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_integer(int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_f90_real(int p, int r, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed(int count, const int array_of_blocklengths[], const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_keyval(MPI_Type_copy_attr_function *type_copy_attr_fn, MPI_Type_delete_attr_function *type_delete_attr_fn, int *type_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Type_create_hindexed_block(int count, int blocklength, const MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_indexed_block(int count, int blocklength, const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_struct(int count, const int array_of_block_lengths[], const MPI_Aint array_of_displacements[], const MPI_Datatype array_of_types[], MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_subarray(int ndims, const int size_array[], const int subsize_array[], const int start_array[], int order, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_create_resized(MPI_Datatype oldtype, MPI_Aint lb, MPI_Aint extent, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_delete_attr(MPI_Datatype type, int type_keyval); __attribute__((visibility("default"))) int PMPI_Type_dup(MPI_Datatype type, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_extent(MPI_Datatype type, MPI_Aint *extent) __attribute__((__deprecated__("MPI_Type_extent is superseded by MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_free(MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_free_keyval(int *type_keyval); __attribute__((visibility("default"))) MPI_Datatype PMPI_Type_f2c(int datatype); __attribute__((visibility("default"))) int PMPI_Type_get_attr(MPI_Datatype type, int type_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Type_get_contents(MPI_Datatype mtype, int max_integers, int max_addresses, int max_datatypes, int array_of_integers[], MPI_Aint array_of_addresses[], MPI_Datatype array_of_datatypes[]); __attribute__((visibility("default"))) int PMPI_Type_get_envelope(MPI_Datatype type, int *num_integers, int *num_addresses, int *num_datatypes, int *combiner); __attribute__((visibility("default"))) int PMPI_Type_get_extent(MPI_Datatype type, MPI_Aint *lb, MPI_Aint *extent); __attribute__((visibility("default"))) int PMPI_Type_get_extent_x(MPI_Datatype type, MPI_Count *lb, MPI_Count *extent); __attribute__((visibility("default"))) int PMPI_Type_get_name(MPI_Datatype type, char *type_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent(MPI_Datatype datatype, MPI_Aint *true_lb, MPI_Aint *true_extent); __attribute__((visibility("default"))) int PMPI_Type_get_true_extent_x(MPI_Datatype datatype, MPI_Count *true_lb, MPI_Count *true_extent); __attribute__((visibility("default"))) int PMPI_Type_hindexed(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hindexed is superseded by MPI_Type_create_hindexed in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_hvector(int count, int blocklength, MPI_Aint stride, MPI_Datatype oldtype, MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_hvector is superseded by MPI_Type_create_hvector in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_indexed(int count, const int array_of_blocklengths[], const int array_of_displacements[], MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Type_lb(MPI_Datatype type, MPI_Aint *lb) __attribute__((__deprecated__("MPI_Type_lb is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_match_size(int typeclass, int size, MPI_Datatype *type); __attribute__((visibility("default"))) int PMPI_Type_set_attr(MPI_Datatype type, int type_keyval, void *attr_val); __attribute__((visibility("default"))) int PMPI_Type_set_name(MPI_Datatype type, const char *type_name); __attribute__((visibility("default"))) int PMPI_Type_size(MPI_Datatype type, int *size); __attribute__((visibility("default"))) int PMPI_Type_size_x(MPI_Datatype type, MPI_Count *size); __attribute__((visibility("default"))) int PMPI_Type_struct(int count, int array_of_blocklengths[], MPI_Aint array_of_displacements[], MPI_Datatype array_of_types[], MPI_Datatype *newtype) __attribute__((__deprecated__("MPI_Type_struct is superseded by MPI_Type_create_struct in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_ub(MPI_Datatype mtype, MPI_Aint *ub) __attribute__((__deprecated__("MPI_Type_ub is deprecated, use MPI_Type_get_extent in MPI-2.0"))); __attribute__((visibility("default"))) int PMPI_Type_vector(int count, int blocklength, int stride, MPI_Datatype oldtype, MPI_Datatype *newtype); __attribute__((visibility("default"))) int PMPI_Unpack(const void *inbuf, int insize, int *position, void *outbuf, int outcount, MPI_Datatype datatype, MPI_Comm comm); __attribute__((visibility("default"))) int PMPI_Unpublish_name(const char *service_name, MPI_Info info, const char *port_name); __attribute__((visibility("default"))) int PMPI_Unpack_external (const char datarep[], const void *inbuf, MPI_Aint insize, MPI_Aint *position, void *outbuf, int outcount, MPI_Datatype datatype); __attribute__((visibility("default"))) int PMPI_Waitall(int count, MPI_Request array_of_requests[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Waitany(int count, MPI_Request array_of_requests[], int *index, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Wait(MPI_Request *request, MPI_Status *status); __attribute__((visibility("default"))) int PMPI_Waitsome(int incount, MPI_Request array_of_requests[], int *outcount, int array_of_indices[], MPI_Status array_of_statuses[]); __attribute__((visibility("default"))) int PMPI_Win_allocate(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_allocate_shared(MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, void *baseptr, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_attach(MPI_Win win, void *base, MPI_Aint size); __attribute__((visibility("default"))) int PMPI_Win_c2f(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_call_errhandler(MPI_Win win, int errorcode); __attribute__((visibility("default"))) int PMPI_Win_complete(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_create(void *base, MPI_Aint size, int disp_unit, MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_dynamic(MPI_Info info, MPI_Comm comm, MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_create_errhandler(MPI_Win_errhandler_function *function, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_create_keyval(MPI_Win_copy_attr_function *win_copy_attr_fn, MPI_Win_delete_attr_function *win_delete_attr_fn, int *win_keyval, void *extra_state); __attribute__((visibility("default"))) int PMPI_Win_delete_attr(MPI_Win win, int win_keyval); __attribute__((visibility("default"))) int PMPI_Win_detach(MPI_Win win, const void *base); __attribute__((visibility("default"))) MPI_Win PMPI_Win_f2c(int win); __attribute__((visibility("default"))) int PMPI_Win_fence(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_flush_local_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_free(MPI_Win *win); __attribute__((visibility("default"))) int PMPI_Win_free_keyval(int *win_keyval); __attribute__((visibility("default"))) int PMPI_Win_get_attr(MPI_Win win, int win_keyval, void *attribute_val, int *flag); __attribute__((visibility("default"))) int PMPI_Win_get_errhandler(MPI_Win win, MPI_Errhandler *errhandler); __attribute__((visibility("default"))) int PMPI_Win_get_group(MPI_Win win, MPI_Group *group); __attribute__((visibility("default"))) int PMPI_Win_get_info(MPI_Win win, MPI_Info *info_used); __attribute__((visibility("default"))) int PMPI_Win_get_name(MPI_Win win, char *win_name, int *resultlen); __attribute__((visibility("default"))) int PMPI_Win_lock(int lock_type, int rank, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_lock_all(int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_post(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_set_attr(MPI_Win win, int win_keyval, void *attribute_val); __attribute__((visibility("default"))) int PMPI_Win_set_errhandler(MPI_Win win, MPI_Errhandler errhandler); __attribute__((visibility("default"))) int PMPI_Win_set_info(MPI_Win win, MPI_Info info); __attribute__((visibility("default"))) int PMPI_Win_set_name(MPI_Win win, const char *win_name); __attribute__((visibility("default"))) int PMPI_Win_shared_query(MPI_Win win, int rank, MPI_Aint *size, int *disp_unit, void *baseptr); __attribute__((visibility("default"))) int PMPI_Win_start(MPI_Group group, int assert, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_sync(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_test(MPI_Win win, int *flag); __attribute__((visibility("default"))) int PMPI_Win_unlock(int rank, MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_unlock_all(MPI_Win win); __attribute__((visibility("default"))) int PMPI_Win_wait(MPI_Win win); __attribute__((visibility("default"))) double PMPI_Wtick(void); __attribute__((visibility("default"))) double PMPI_Wtime(void); __attribute__((visibility("default"))) int PMPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int PMPI_T_finalize (void); __attribute__((visibility("default"))) int PMPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int PMPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int PMPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int PMPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int PMPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int PMPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int PMPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int PMPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int PMPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int PMPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int PMPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int PMPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int PMPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int PMPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int PMPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int PMPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int PMPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_init_thread (int required, int *provided); __attribute__((visibility("default"))) int MPI_T_finalize (void); __attribute__((visibility("default"))) int MPI_T_cvar_get_num (int *num_cvar); __attribute__((visibility("default"))) int MPI_T_cvar_get_info (int cvar_index, char *name, int *name_len, int *verbosity, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *scope); __attribute__((visibility("default"))) int MPI_T_cvar_get_index (const char *name, int *cvar_index); __attribute__((visibility("default"))) int MPI_T_cvar_handle_alloc (int cvar_index, void *obj_handle, MPI_T_cvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_cvar_handle_free (MPI_T_cvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_cvar_read (MPI_T_cvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_cvar_write (MPI_T_cvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_category_get_num(int *num_cat); __attribute__((visibility("default"))) int MPI_T_category_get_info(int cat_index, char *name, int *name_len, char *desc, int *desc_len, int *num_cvars, int *num_pvars, int *num_categories); __attribute__((visibility("default"))) int MPI_T_category_get_index (const char *name, int *category_index); __attribute__((visibility("default"))) int MPI_T_category_get_cvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_pvars(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_get_categories(int cat_index, int len, int indices[]); __attribute__((visibility("default"))) int MPI_T_category_changed(int *stamp); __attribute__((visibility("default"))) int MPI_T_pvar_get_num(int *num_pvar); __attribute__((visibility("default"))) int MPI_T_pvar_get_info(int pvar_index, char *name, int *name_len, int *verbosity, int *var_class, MPI_Datatype *datatype, MPI_T_enum *enumtype, char *desc, int *desc_len, int *bind, int *readonly, int *continuous, int *atomic); __attribute__((visibility("default"))) int MPI_T_pvar_get_index (const char *name, int var_class, int *pvar_index); __attribute__((visibility("default"))) int MPI_T_pvar_session_create(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_session_free(MPI_T_pvar_session *session); __attribute__((visibility("default"))) int MPI_T_pvar_handle_alloc(MPI_T_pvar_session session, int pvar_index, void *obj_handle, MPI_T_pvar_handle *handle, int *count); __attribute__((visibility("default"))) int MPI_T_pvar_handle_free(MPI_T_pvar_session session, MPI_T_pvar_handle *handle); __attribute__((visibility("default"))) int MPI_T_pvar_start(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_stop(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_read(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_write(MPI_T_pvar_session session, MPI_T_pvar_handle handle, const void *buf); __attribute__((visibility("default"))) int MPI_T_pvar_reset(MPI_T_pvar_session session, MPI_T_pvar_handle handle); __attribute__((visibility("default"))) int MPI_T_pvar_readreset(MPI_T_pvar_session session, MPI_T_pvar_handle handle, void *buf); __attribute__((visibility("default"))) int MPI_T_enum_get_info(MPI_T_enum enumtype, int *num, char *name, int *name_len); __attribute__((visibility("default"))) int MPI_T_enum_get_item(MPI_T_enum enumtype, int index, int *value, char *name, int *name_len); # 41 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/usr/include/stdlib.h" 1 3 4 # 25 "/usr/include/stdlib.h" 3 4 # 1 "/usr/include/features.h" 1 3 4 # 361 "/usr/include/features.h" 3 4 # 1 "/usr/include/sys/cdefs.h" 1 3 4 # 373 "/usr/include/sys/cdefs.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 374 "/usr/include/sys/cdefs.h" 2 3 4 # 362 "/usr/include/features.h" 2 3 4 # 385 "/usr/include/features.h" 3 4 # 1 "/usr/include/gnu/stubs.h" 1 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 5 "/usr/include/gnu/stubs.h" 2 3 4 # 1 "/usr/include/gnu/stubs-64.h" 1 3 4 # 10 "/usr/include/gnu/stubs.h" 2 3 4 # 386 "/usr/include/features.h" 2 3 4 # 26 "/usr/include/stdlib.h" 2 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 34 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitflags.h" 1 3 4 # 43 "/usr/include/stdlib.h" 2 3 4 # 1 "/usr/include/bits/waitstatus.h" 1 3 4 # 65 "/usr/include/bits/waitstatus.h" 3 4 # 1 "/usr/include/endian.h" 1 3 4 # 37 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/endian.h" 1 3 4 # 38 "/usr/include/endian.h" 2 3 4 # 61 "/usr/include/endian.h" 3 4 # 1 "/usr/include/bits/byteswap.h" 1 3 4 # 28 "/usr/include/bits/byteswap.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/byteswap.h" 2 3 4 # 62 "/usr/include/endian.h" 2 3 4 # 66 "/usr/include/bits/waitstatus.h" 2 3 4 union wait { int w_status; struct { unsigned int __w_termsig:7; unsigned int __w_coredump:1; unsigned int __w_retcode:8; unsigned int:16; } __wait_terminated; struct { unsigned int __w_stopval:8; unsigned int __w_stopsig:8; unsigned int:16; } __wait_stopped; }; # 44 "/usr/include/stdlib.h" 2 3 4 # 68 "/usr/include/stdlib.h" 3 4 typedef union { union wait *__uptr; int *__iptr; } __WAIT_STATUS __attribute__ ((__transparent_union__)); # 96 "/usr/include/stdlib.h" 3 4 typedef struct { int quot; int rem; } div_t; typedef struct { long int quot; long int rem; } ldiv_t; __extension__ typedef struct { long long int quot; long long int rem; } lldiv_t; # 140 "/usr/include/stdlib.h" 3 4 extern size_t __ctype_get_mb_cur_max (void) __attribute__ ((__nothrow__)) ; extern double atof (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern int atoi (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern long int atol (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int atoll (__const char *__nptr) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; extern double strtod (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern float strtof (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long double strtold (__const char *__restrict __nptr, char **__restrict __endptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern long int strtol (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern unsigned long int strtoul (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtouq (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern long long int strtoll (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; __extension__ extern unsigned long long int strtoull (__const char *__restrict __nptr, char **__restrict __endptr, int __base) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 311 "/usr/include/stdlib.h" 3 4 extern char *l64a (long int __n) __attribute__ ((__nothrow__)) ; extern long int a64l (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))) ; # 1 "/usr/include/sys/types.h" 1 3 4 # 28 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/types.h" 1 3 4 # 28 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 29 "/usr/include/bits/types.h" 2 3 4 typedef unsigned char __u_char; typedef unsigned short int __u_short; typedef unsigned int __u_int; typedef unsigned long int __u_long; typedef signed char __int8_t; typedef unsigned char __uint8_t; typedef signed short int __int16_t; typedef unsigned short int __uint16_t; typedef signed int __int32_t; typedef unsigned int __uint32_t; typedef signed long int __int64_t; typedef unsigned long int __uint64_t; typedef long int __quad_t; typedef unsigned long int __u_quad_t; # 131 "/usr/include/bits/types.h" 3 4 # 1 "/usr/include/bits/typesizes.h" 1 3 4 # 132 "/usr/include/bits/types.h" 2 3 4 typedef unsigned long int __dev_t; typedef unsigned int __uid_t; typedef unsigned int __gid_t; typedef unsigned long int __ino_t; typedef unsigned long int __ino64_t; typedef unsigned int __mode_t; typedef unsigned long int __nlink_t; typedef long int __off_t; typedef long int __off64_t; typedef int __pid_t; typedef struct { int __val[2]; } __fsid_t; typedef long int __clock_t; typedef unsigned long int __rlim_t; typedef unsigned long int __rlim64_t; typedef unsigned int __id_t; typedef long int __time_t; typedef unsigned int __useconds_t; typedef long int __suseconds_t; typedef int __daddr_t; typedef long int __swblk_t; typedef int __key_t; typedef int __clockid_t; typedef void * __timer_t; typedef long int __blksize_t; typedef long int __blkcnt_t; typedef long int __blkcnt64_t; typedef unsigned long int __fsblkcnt_t; typedef unsigned long int __fsblkcnt64_t; typedef unsigned long int __fsfilcnt_t; typedef unsigned long int __fsfilcnt64_t; typedef long int __ssize_t; typedef __off64_t __loff_t; typedef __quad_t *__qaddr_t; typedef char *__caddr_t; typedef long int __intptr_t; typedef unsigned int __socklen_t; # 31 "/usr/include/sys/types.h" 2 3 4 typedef __u_char u_char; typedef __u_short u_short; typedef __u_int u_int; typedef __u_long u_long; typedef __quad_t quad_t; typedef __u_quad_t u_quad_t; typedef __fsid_t fsid_t; typedef __loff_t loff_t; typedef __ino_t ino_t; # 61 "/usr/include/sys/types.h" 3 4 typedef __dev_t dev_t; typedef __gid_t gid_t; typedef __mode_t mode_t; typedef __nlink_t nlink_t; typedef __uid_t uid_t; typedef __off_t off_t; # 99 "/usr/include/sys/types.h" 3 4 typedef __pid_t pid_t; typedef __id_t id_t; typedef __ssize_t ssize_t; typedef __daddr_t daddr_t; typedef __caddr_t caddr_t; typedef __key_t key_t; # 133 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/time.h" 1 3 4 # 58 "/usr/include/time.h" 3 4 typedef __clock_t clock_t; # 74 "/usr/include/time.h" 3 4 typedef __time_t time_t; # 92 "/usr/include/time.h" 3 4 typedef __clockid_t clockid_t; # 104 "/usr/include/time.h" 3 4 typedef __timer_t timer_t; # 134 "/usr/include/sys/types.h" 2 3 4 # 147 "/usr/include/sys/types.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 148 "/usr/include/sys/types.h" 2 3 4 typedef unsigned long int ulong; typedef unsigned short int ushort; typedef unsigned int uint; # 195 "/usr/include/sys/types.h" 3 4 typedef int int8_t __attribute__ ((__mode__ (__QI__))); typedef int int16_t __attribute__ ((__mode__ (__HI__))); typedef int int32_t __attribute__ ((__mode__ (__SI__))); typedef int int64_t __attribute__ ((__mode__ (__DI__))); typedef unsigned int u_int8_t __attribute__ ((__mode__ (__QI__))); typedef unsigned int u_int16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int u_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int u_int64_t __attribute__ ((__mode__ (__DI__))); typedef int register_t __attribute__ ((__mode__ (__word__))); # 220 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/sys/select.h" 1 3 4 # 31 "/usr/include/sys/select.h" 3 4 # 1 "/usr/include/bits/select.h" 1 3 4 # 23 "/usr/include/bits/select.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/select.h" 2 3 4 # 32 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/sigset.h" 1 3 4 # 24 "/usr/include/bits/sigset.h" 3 4 typedef int __sig_atomic_t; typedef struct { unsigned long int __val[(1024 / (8 * sizeof (unsigned long int)))]; } __sigset_t; # 35 "/usr/include/sys/select.h" 2 3 4 typedef __sigset_t sigset_t; # 1 "/usr/include/time.h" 1 3 4 # 120 "/usr/include/time.h" 3 4 struct timespec { __time_t tv_sec; long int tv_nsec; }; # 45 "/usr/include/sys/select.h" 2 3 4 # 1 "/usr/include/bits/time.h" 1 3 4 # 75 "/usr/include/bits/time.h" 3 4 struct timeval { __time_t tv_sec; __suseconds_t tv_usec; }; # 47 "/usr/include/sys/select.h" 2 3 4 typedef __suseconds_t suseconds_t; typedef long int __fd_mask; # 67 "/usr/include/sys/select.h" 3 4 typedef struct { __fd_mask __fds_bits[1024 / (8 * (int) sizeof (__fd_mask))]; } fd_set; typedef __fd_mask fd_mask; # 99 "/usr/include/sys/select.h" 3 4 # 109 "/usr/include/sys/select.h" 3 4 extern int select (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, struct timeval *__restrict __timeout); # 121 "/usr/include/sys/select.h" 3 4 extern int pselect (int __nfds, fd_set *__restrict __readfds, fd_set *__restrict __writefds, fd_set *__restrict __exceptfds, const struct timespec *__restrict __timeout, const __sigset_t *__restrict __sigmask); # 221 "/usr/include/sys/types.h" 2 3 4 # 1 "/usr/include/sys/sysmacros.h" 1 3 4 # 30 "/usr/include/sys/sysmacros.h" 3 4 __extension__ extern unsigned int gnu_dev_major (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned int gnu_dev_minor (unsigned long long int __dev) __attribute__ ((__nothrow__)); __extension__ extern unsigned long long int gnu_dev_makedev (unsigned int __major, unsigned int __minor) __attribute__ ((__nothrow__)); # 224 "/usr/include/sys/types.h" 2 3 4 typedef __blksize_t blksize_t; typedef __blkcnt_t blkcnt_t; typedef __fsblkcnt_t fsblkcnt_t; typedef __fsfilcnt_t fsfilcnt_t; # 271 "/usr/include/sys/types.h" 3 4 # 1 "/usr/include/bits/pthreadtypes.h" 1 3 4 # 23 "/usr/include/bits/pthreadtypes.h" 3 4 # 1 "/usr/include/bits/wordsize.h" 1 3 4 # 24 "/usr/include/bits/pthreadtypes.h" 2 3 4 # 50 "/usr/include/bits/pthreadtypes.h" 3 4 typedef unsigned long int pthread_t; typedef union { char __size[56]; long int __align; } pthread_attr_t; typedef struct __pthread_internal_list { struct __pthread_internal_list *__prev; struct __pthread_internal_list *__next; } __pthread_list_t; # 76 "/usr/include/bits/pthreadtypes.h" 3 4 typedef union { struct __pthread_mutex_s { int __lock; unsigned int __count; int __owner; unsigned int __nusers; int __kind; int __spins; __pthread_list_t __list; # 101 "/usr/include/bits/pthreadtypes.h" 3 4 } __data; char __size[40]; long int __align; } pthread_mutex_t; typedef union { char __size[4]; int __align; } pthread_mutexattr_t; typedef union { struct { int __lock; unsigned int __futex; __extension__ unsigned long long int __total_seq; __extension__ unsigned long long int __wakeup_seq; __extension__ unsigned long long int __woken_seq; void *__mutex; unsigned int __nwaiters; unsigned int __broadcast_seq; } __data; char __size[48]; __extension__ long long int __align; } pthread_cond_t; typedef union { char __size[4]; int __align; } pthread_condattr_t; typedef unsigned int pthread_key_t; typedef int pthread_once_t; typedef union { struct { int __lock; unsigned int __nr_readers; unsigned int __readers_wakeup; unsigned int __writer_wakeup; unsigned int __nr_readers_queued; unsigned int __nr_writers_queued; int __writer; int __shared; unsigned long int __pad1; unsigned long int __pad2; unsigned int __flags; } __data; # 187 "/usr/include/bits/pthreadtypes.h" 3 4 char __size[56]; long int __align; } pthread_rwlock_t; typedef union { char __size[8]; long int __align; } pthread_rwlockattr_t; typedef volatile int pthread_spinlock_t; typedef union { char __size[32]; long int __align; } pthread_barrier_t; typedef union { char __size[4]; int __align; } pthread_barrierattr_t; # 272 "/usr/include/sys/types.h" 2 3 4 # 321 "/usr/include/stdlib.h" 2 3 4 extern long int random (void) __attribute__ ((__nothrow__)); extern void srandom (unsigned int __seed) __attribute__ ((__nothrow__)); extern char *initstate (unsigned int __seed, char *__statebuf, size_t __statelen) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *setstate (char *__statebuf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct random_data { int32_t *fptr; int32_t *rptr; int32_t *state; int rand_type; int rand_deg; int rand_sep; int32_t *end_ptr; }; extern int random_r (struct random_data *__restrict __buf, int32_t *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srandom_r (unsigned int __seed, struct random_data *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int initstate_r (unsigned int __seed, char *__restrict __statebuf, size_t __statelen, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern int setstate_r (char *__restrict __statebuf, struct random_data *__restrict __buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int rand (void) __attribute__ ((__nothrow__)); extern void srand (unsigned int __seed) __attribute__ ((__nothrow__)); extern int rand_r (unsigned int *__seed) __attribute__ ((__nothrow__)); extern double drand48 (void) __attribute__ ((__nothrow__)); extern double erand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int lrand48 (void) __attribute__ ((__nothrow__)); extern long int nrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern long int mrand48 (void) __attribute__ ((__nothrow__)); extern long int jrand48 (unsigned short int __xsubi[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void srand48 (long int __seedval) __attribute__ ((__nothrow__)); extern unsigned short int *seed48 (unsigned short int __seed16v[3]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void lcong48 (unsigned short int __param[7]) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); struct drand48_data { unsigned short int __x[3]; unsigned short int __old_x[3]; unsigned short int __c; unsigned short int __init; unsigned long long int __a; }; extern int drand48_r (struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int erand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, double *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int nrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int mrand48_r (struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int jrand48_r (unsigned short int __xsubi[3], struct drand48_data *__restrict __buffer, long int *__restrict __result) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int srand48_r (long int __seedval, struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int seed48_r (unsigned short int __seed16v[3], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int lcong48_r (unsigned short int __param[7], struct drand48_data *__buffer) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *malloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *calloc (size_t __nmemb, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern void *realloc (void *__ptr, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__warn_unused_result__)); extern void free (void *__ptr) __attribute__ ((__nothrow__)); extern void cfree (void *__ptr) __attribute__ ((__nothrow__)); # 1 "/usr/include/alloca.h" 1 3 4 # 25 "/usr/include/alloca.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 26 "/usr/include/alloca.h" 2 3 4 extern void *alloca (size_t __size) __attribute__ ((__nothrow__)); # 498 "/usr/include/stdlib.h" 2 3 4 extern void *valloc (size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int posix_memalign (void **__memptr, size_t __alignment, size_t __size) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern void abort (void) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern int atexit (void (*__func) (void)) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 531 "/usr/include/stdlib.h" 3 4 extern int on_exit (void (*__func) (int __status, void *__arg), void *__arg) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); # 554 "/usr/include/stdlib.h" 3 4 extern void _Exit (int __status) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern char *getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern char *__secure_getenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; extern int putenv (char *__string) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int setenv (__const char *__name, __const char *__value, int __replace) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern int unsetenv (__const char *__name) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int clearenv (void) __attribute__ ((__nothrow__)); # 606 "/usr/include/stdlib.h" 3 4 extern char *mktemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 620 "/usr/include/stdlib.h" 3 4 extern int mkstemp (char *__template) __attribute__ ((__nonnull__ (1))) ; # 642 "/usr/include/stdlib.h" 3 4 extern int mkstemps (char *__template, int __suffixlen) __attribute__ ((__nonnull__ (1))) ; # 663 "/usr/include/stdlib.h" 3 4 extern char *mkdtemp (char *__template) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 712 "/usr/include/stdlib.h" 3 4 extern int system (__const char *__command) ; # 734 "/usr/include/stdlib.h" 3 4 extern char *realpath (__const char *__restrict __name, char *__restrict __resolved) __attribute__ ((__nothrow__)) ; typedef int (*__compar_fn_t) (__const void *, __const void *); # 752 "/usr/include/stdlib.h" 3 4 extern void *bsearch (__const void *__key, __const void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 2, 5))) ; extern void qsort (void *__base, size_t __nmemb, size_t __size, __compar_fn_t __compar) __attribute__ ((__nonnull__ (1, 4))); # 771 "/usr/include/stdlib.h" 3 4 extern int abs (int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern long int labs (long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern long long int llabs (long long int __x) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern div_t div (int __numer, int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; extern ldiv_t ldiv (long int __numer, long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; __extension__ extern lldiv_t lldiv (long long int __numer, long long int __denom) __attribute__ ((__nothrow__)) __attribute__ ((__const__)) ; # 808 "/usr/include/stdlib.h" 3 4 extern char *ecvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *fcvt (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *gcvt (double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern char *qecvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qfcvt (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4))) ; extern char *qgcvt (long double __value, int __ndigit, char *__buf) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3))) ; extern int ecvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int fcvt_r (double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qecvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int qfcvt_r (long double __value, int __ndigit, int *__restrict __decpt, int *__restrict __sign, char *__restrict __buf, size_t __len) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (3, 4, 5))); extern int mblen (__const char *__s, size_t __n) __attribute__ ((__nothrow__)) ; extern int mbtowc (wchar_t *__restrict __pwc, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)) ; extern int wctomb (char *__s, wchar_t __wchar) __attribute__ ((__nothrow__)) ; extern size_t mbstowcs (wchar_t *__restrict __pwcs, __const char *__restrict __s, size_t __n) __attribute__ ((__nothrow__)); extern size_t wcstombs (char *__restrict __s, __const wchar_t *__restrict __pwcs, size_t __n) __attribute__ ((__nothrow__)); extern int rpmatch (__const char *__response) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))) ; # 896 "/usr/include/stdlib.h" 3 4 extern int getsubopt (char **__restrict __optionp, char *__const *__restrict __tokens, char **__restrict __valuep) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2, 3))) ; # 948 "/usr/include/stdlib.h" 3 4 extern int getloadavg (double __loadavg[], int __nelem) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); # 964 "/usr/include/stdlib.h" 3 4 # 42 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/usr/include/stdio.h" 1 3 4 # 30 "/usr/include/stdio.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 35 "/usr/include/stdio.h" 2 3 4 # 45 "/usr/include/stdio.h" 3 4 struct _IO_FILE; typedef struct _IO_FILE FILE; # 65 "/usr/include/stdio.h" 3 4 typedef struct _IO_FILE __FILE; # 75 "/usr/include/stdio.h" 3 4 # 1 "/usr/include/libio.h" 1 3 4 # 32 "/usr/include/libio.h" 3 4 # 1 "/usr/include/_G_config.h" 1 3 4 # 15 "/usr/include/_G_config.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 16 "/usr/include/_G_config.h" 2 3 4 # 1 "/usr/include/wchar.h" 1 3 4 # 83 "/usr/include/wchar.h" 3 4 typedef struct { int __count; union { unsigned int __wch; char __wchb[4]; } __value; } __mbstate_t; # 21 "/usr/include/_G_config.h" 2 3 4 typedef struct { __off_t __pos; __mbstate_t __state; } _G_fpos_t; typedef struct { __off64_t __pos; __mbstate_t __state; } _G_fpos64_t; # 53 "/usr/include/_G_config.h" 3 4 typedef int _G_int16_t __attribute__ ((__mode__ (__HI__))); typedef int _G_int32_t __attribute__ ((__mode__ (__SI__))); typedef unsigned int _G_uint16_t __attribute__ ((__mode__ (__HI__))); typedef unsigned int _G_uint32_t __attribute__ ((__mode__ (__SI__))); # 33 "/usr/include/libio.h" 2 3 4 # 53 "/usr/include/libio.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 1 3 4 # 40 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stdarg.h" 3 4 typedef __builtin_va_list __gnuc_va_list; # 54 "/usr/include/libio.h" 2 3 4 # 170 "/usr/include/libio.h" 3 4 struct _IO_jump_t; struct _IO_FILE; # 180 "/usr/include/libio.h" 3 4 typedef void _IO_lock_t; struct _IO_marker { struct _IO_marker *_next; struct _IO_FILE *_sbuf; int _pos; # 203 "/usr/include/libio.h" 3 4 }; enum __codecvt_result { __codecvt_ok, __codecvt_partial, __codecvt_error, __codecvt_noconv }; # 271 "/usr/include/libio.h" 3 4 struct _IO_FILE { int _flags; char* _IO_read_ptr; char* _IO_read_end; char* _IO_read_base; char* _IO_write_base; char* _IO_write_ptr; char* _IO_write_end; char* _IO_buf_base; char* _IO_buf_end; char *_IO_save_base; char *_IO_backup_base; char *_IO_save_end; struct _IO_marker *_markers; struct _IO_FILE *_chain; int _fileno; int _flags2; __off_t _old_offset; unsigned short _cur_column; signed char _vtable_offset; char _shortbuf[1]; _IO_lock_t *_lock; # 319 "/usr/include/libio.h" 3 4 __off64_t _offset; # 328 "/usr/include/libio.h" 3 4 void *__pad1; void *__pad2; void *__pad3; void *__pad4; size_t __pad5; int _mode; char _unused2[15 * sizeof (int) - 4 * sizeof (void *) - sizeof (size_t)]; }; typedef struct _IO_FILE _IO_FILE; struct _IO_FILE_plus; extern struct _IO_FILE_plus _IO_2_1_stdin_; extern struct _IO_FILE_plus _IO_2_1_stdout_; extern struct _IO_FILE_plus _IO_2_1_stderr_; # 364 "/usr/include/libio.h" 3 4 typedef __ssize_t __io_read_fn (void *__cookie, char *__buf, size_t __nbytes); typedef __ssize_t __io_write_fn (void *__cookie, __const char *__buf, size_t __n); typedef int __io_seek_fn (void *__cookie, __off64_t *__pos, int __w); typedef int __io_close_fn (void *__cookie); # 416 "/usr/include/libio.h" 3 4 extern int __underflow (_IO_FILE *); extern int __uflow (_IO_FILE *); extern int __overflow (_IO_FILE *, int); # 460 "/usr/include/libio.h" 3 4 extern int _IO_getc (_IO_FILE *__fp); extern int _IO_putc (int __c, _IO_FILE *__fp); extern int _IO_feof (_IO_FILE *__fp) __attribute__ ((__nothrow__)); extern int _IO_ferror (_IO_FILE *__fp) __attribute__ ((__nothrow__)); extern int _IO_peekc_locked (_IO_FILE *__fp); extern void _IO_flockfile (_IO_FILE *) __attribute__ ((__nothrow__)); extern void _IO_funlockfile (_IO_FILE *) __attribute__ ((__nothrow__)); extern int _IO_ftrylockfile (_IO_FILE *) __attribute__ ((__nothrow__)); # 490 "/usr/include/libio.h" 3 4 extern int _IO_vfscanf (_IO_FILE * __restrict, const char * __restrict, __gnuc_va_list, int *__restrict); extern int _IO_vfprintf (_IO_FILE *__restrict, const char *__restrict, __gnuc_va_list); extern __ssize_t _IO_padn (_IO_FILE *, int, __ssize_t); extern size_t _IO_sgetn (_IO_FILE *, void *, size_t); extern __off64_t _IO_seekoff (_IO_FILE *, __off64_t, int, int); extern __off64_t _IO_seekpos (_IO_FILE *, __off64_t, int); extern void _IO_free_backup_area (_IO_FILE *) __attribute__ ((__nothrow__)); # 76 "/usr/include/stdio.h" 2 3 4 typedef __gnuc_va_list va_list; # 109 "/usr/include/stdio.h" 3 4 typedef _G_fpos_t fpos_t; # 161 "/usr/include/stdio.h" 3 4 # 1 "/usr/include/bits/stdio_lim.h" 1 3 4 # 162 "/usr/include/stdio.h" 2 3 4 extern struct _IO_FILE *stdin; extern struct _IO_FILE *stdout; extern struct _IO_FILE *stderr; extern int remove (__const char *__filename) __attribute__ ((__nothrow__)); extern int rename (__const char *__old, __const char *__new) __attribute__ ((__nothrow__)); extern int renameat (int __oldfd, __const char *__old, int __newfd, __const char *__new) __attribute__ ((__nothrow__)); extern FILE *tmpfile (void) ; # 208 "/usr/include/stdio.h" 3 4 extern char *tmpnam (char *__s) __attribute__ ((__nothrow__)) ; extern char *tmpnam_r (char *__s) __attribute__ ((__nothrow__)) ; # 226 "/usr/include/stdio.h" 3 4 extern char *tempnam (__const char *__dir, __const char *__pfx) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) ; extern int fclose (FILE *__stream); extern int fflush (FILE *__stream); # 251 "/usr/include/stdio.h" 3 4 extern int fflush_unlocked (FILE *__stream); # 265 "/usr/include/stdio.h" 3 4 extern FILE *fopen (__const char *__restrict __filename, __const char *__restrict __modes) ; extern FILE *freopen (__const char *__restrict __filename, __const char *__restrict __modes, FILE *__restrict __stream) ; # 294 "/usr/include/stdio.h" 3 4 # 305 "/usr/include/stdio.h" 3 4 extern FILE *fdopen (int __fd, __const char *__modes) __attribute__ ((__nothrow__)) ; # 318 "/usr/include/stdio.h" 3 4 extern FILE *fmemopen (void *__s, size_t __len, __const char *__modes) __attribute__ ((__nothrow__)) ; extern FILE *open_memstream (char **__bufloc, size_t *__sizeloc) __attribute__ ((__nothrow__)) ; extern void setbuf (FILE *__restrict __stream, char *__restrict __buf) __attribute__ ((__nothrow__)); extern int setvbuf (FILE *__restrict __stream, char *__restrict __buf, int __modes, size_t __n) __attribute__ ((__nothrow__)); extern void setbuffer (FILE *__restrict __stream, char *__restrict __buf, size_t __size) __attribute__ ((__nothrow__)); extern void setlinebuf (FILE *__stream) __attribute__ ((__nothrow__)); extern int fprintf (FILE *__restrict __stream, __const char *__restrict __format, ...); extern int printf (__const char *__restrict __format, ...); extern int sprintf (char *__restrict __s, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)); extern int vfprintf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg); extern int vprintf (__const char *__restrict __format, __gnuc_va_list __arg); extern int vsprintf (char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)); extern int snprintf (char *__restrict __s, size_t __maxlen, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__printf__, 3, 4))); extern int vsnprintf (char *__restrict __s, size_t __maxlen, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__printf__, 3, 0))); # 416 "/usr/include/stdio.h" 3 4 extern int vdprintf (int __fd, __const char *__restrict __fmt, __gnuc_va_list __arg) __attribute__ ((__format__ (__printf__, 2, 0))); extern int dprintf (int __fd, __const char *__restrict __fmt, ...) __attribute__ ((__format__ (__printf__, 2, 3))); extern int fscanf (FILE *__restrict __stream, __const char *__restrict __format, ...) ; extern int scanf (__const char *__restrict __format, ...) ; extern int sscanf (__const char *__restrict __s, __const char *__restrict __format, ...) __attribute__ ((__nothrow__)); # 447 "/usr/include/stdio.h" 3 4 extern int fscanf (FILE *__restrict __stream, __const char *__restrict __format, ...) __asm__ ("" "__isoc99_fscanf") ; extern int scanf (__const char *__restrict __format, ...) __asm__ ("" "__isoc99_scanf") ; extern int sscanf (__const char *__restrict __s, __const char *__restrict __format, ...) __asm__ ("" "__isoc99_sscanf") __attribute__ ((__nothrow__)); # 467 "/usr/include/stdio.h" 3 4 extern int vfscanf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__format__ (__scanf__, 2, 0))) ; extern int vscanf (__const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__format__ (__scanf__, 1, 0))) ; extern int vsscanf (__const char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__scanf__, 2, 0))); # 498 "/usr/include/stdio.h" 3 4 extern int vfscanf (FILE *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vfscanf") __attribute__ ((__format__ (__scanf__, 2, 0))) ; extern int vscanf (__const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vscanf") __attribute__ ((__format__ (__scanf__, 1, 0))) ; extern int vsscanf (__const char *__restrict __s, __const char *__restrict __format, __gnuc_va_list __arg) __asm__ ("" "__isoc99_vsscanf") __attribute__ ((__nothrow__)) __attribute__ ((__format__ (__scanf__, 2, 0))); # 526 "/usr/include/stdio.h" 3 4 extern int fgetc (FILE *__stream); extern int getc (FILE *__stream); extern int getchar (void); # 554 "/usr/include/stdio.h" 3 4 extern int getc_unlocked (FILE *__stream); extern int getchar_unlocked (void); # 565 "/usr/include/stdio.h" 3 4 extern int fgetc_unlocked (FILE *__stream); extern int fputc (int __c, FILE *__stream); extern int putc (int __c, FILE *__stream); extern int putchar (int __c); # 598 "/usr/include/stdio.h" 3 4 extern int fputc_unlocked (int __c, FILE *__stream); extern int putc_unlocked (int __c, FILE *__stream); extern int putchar_unlocked (int __c); extern int getw (FILE *__stream); extern int putw (int __w, FILE *__stream); extern char *fgets (char *__restrict __s, int __n, FILE *__restrict __stream) ; extern char *gets (char *__s) ; # 660 "/usr/include/stdio.h" 3 4 extern __ssize_t __getdelim (char **__restrict __lineptr, size_t *__restrict __n, int __delimiter, FILE *__restrict __stream) ; extern __ssize_t getdelim (char **__restrict __lineptr, size_t *__restrict __n, int __delimiter, FILE *__restrict __stream) ; extern __ssize_t getline (char **__restrict __lineptr, size_t *__restrict __n, FILE *__restrict __stream) ; extern int fputs (__const char *__restrict __s, FILE *__restrict __stream); extern int puts (__const char *__s); extern int ungetc (int __c, FILE *__stream); extern size_t fread (void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern size_t fwrite (__const void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __s) ; # 732 "/usr/include/stdio.h" 3 4 extern size_t fread_unlocked (void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern size_t fwrite_unlocked (__const void *__restrict __ptr, size_t __size, size_t __n, FILE *__restrict __stream) ; extern int fseek (FILE *__stream, long int __off, int __whence); extern long int ftell (FILE *__stream) ; extern void rewind (FILE *__stream); # 768 "/usr/include/stdio.h" 3 4 extern int fseeko (FILE *__stream, __off_t __off, int __whence); extern __off_t ftello (FILE *__stream) ; # 787 "/usr/include/stdio.h" 3 4 extern int fgetpos (FILE *__restrict __stream, fpos_t *__restrict __pos); extern int fsetpos (FILE *__stream, __const fpos_t *__pos); # 810 "/usr/include/stdio.h" 3 4 # 819 "/usr/include/stdio.h" 3 4 extern void clearerr (FILE *__stream) __attribute__ ((__nothrow__)); extern int feof (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int ferror (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void clearerr_unlocked (FILE *__stream) __attribute__ ((__nothrow__)); extern int feof_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int ferror_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void perror (__const char *__s); # 1 "/usr/include/bits/sys_errlist.h" 1 3 4 # 27 "/usr/include/bits/sys_errlist.h" 3 4 extern int sys_nerr; extern __const char *__const sys_errlist[]; # 849 "/usr/include/stdio.h" 2 3 4 extern int fileno (FILE *__stream) __attribute__ ((__nothrow__)) ; extern int fileno_unlocked (FILE *__stream) __attribute__ ((__nothrow__)) ; # 868 "/usr/include/stdio.h" 3 4 extern FILE *popen (__const char *__command, __const char *__modes) ; extern int pclose (FILE *__stream); extern char *ctermid (char *__s) __attribute__ ((__nothrow__)); # 908 "/usr/include/stdio.h" 3 4 extern void flockfile (FILE *__stream) __attribute__ ((__nothrow__)); extern int ftrylockfile (FILE *__stream) __attribute__ ((__nothrow__)) ; extern void funlockfile (FILE *__stream) __attribute__ ((__nothrow__)); # 938 "/usr/include/stdio.h" 3 4 # 43 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 34 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 1 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 1 3 4 # 168 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 3 4 # 1 "/usr/include/limits.h" 1 3 4 # 145 "/usr/include/limits.h" 3 4 # 1 "/usr/include/bits/posix1_lim.h" 1 3 4 # 157 "/usr/include/bits/posix1_lim.h" 3 4 # 1 "/usr/include/bits/local_lim.h" 1 3 4 # 39 "/usr/include/bits/local_lim.h" 3 4 # 1 "/usr/include/linux/limits.h" 1 3 4 # 40 "/usr/include/bits/local_lim.h" 2 3 4 # 158 "/usr/include/bits/posix1_lim.h" 2 3 4 # 146 "/usr/include/limits.h" 2 3 4 # 1 "/usr/include/bits/posix2_lim.h" 1 3 4 # 150 "/usr/include/limits.h" 2 3 4 # 169 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 8 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/syslimits.h" 2 3 4 # 35 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include-fixed/limits.h" 2 3 4 # 44 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/usr/include/string.h" 1 3 4 # 29 "/usr/include/string.h" 3 4 # 1 "/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3/include/stddef.h" 1 3 4 # 35 "/usr/include/string.h" 2 3 4 extern void *memcpy (void *__restrict __dest, __const void *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memmove (void *__dest, __const void *__src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memccpy (void *__restrict __dest, __const void *__restrict __src, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void *memset (void *__s, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int memcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 95 "/usr/include/string.h" 3 4 extern void *memchr (__const void *__s, int __c, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 126 "/usr/include/string.h" 3 4 extern char *strcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strcat (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strncat (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern int strcmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strncmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strcoll (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern size_t strxfrm (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 1 "/usr/include/xlocale.h" 1 3 4 # 28 "/usr/include/xlocale.h" 3 4 typedef struct __locale_struct { struct __locale_data *__locales[13]; const unsigned short int *__ctype_b; const int *__ctype_tolower; const int *__ctype_toupper; const char *__names[13]; } *__locale_t; typedef __locale_t locale_t; # 163 "/usr/include/string.h" 2 3 4 extern int strcoll_l (__const char *__s1, __const char *__s2, __locale_t __l) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2, 3))); extern size_t strxfrm_l (char *__dest, __const char *__src, size_t __n, __locale_t __l) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 4))); extern char *strdup (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) __attribute__ ((__nonnull__ (1))); extern char *strndup (__const char *__string, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__malloc__)) __attribute__ ((__nonnull__ (1))); # 210 "/usr/include/string.h" 3 4 # 235 "/usr/include/string.h" 3 4 extern char *strchr (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 262 "/usr/include/string.h" 3 4 extern char *strrchr (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 281 "/usr/include/string.h" 3 4 extern size_t strcspn (__const char *__s, __const char *__reject) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern size_t strspn (__const char *__s, __const char *__accept) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 314 "/usr/include/string.h" 3 4 extern char *strpbrk (__const char *__s, __const char *__accept) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 342 "/usr/include/string.h" 3 4 extern char *strstr (__const char *__haystack, __const char *__needle) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strtok (char *__restrict __s, __const char *__restrict __delim) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); extern char *__strtok_r (char *__restrict __s, __const char *__restrict __delim, char **__restrict __save_ptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); extern char *strtok_r (char *__restrict __s, __const char *__restrict __delim, char **__restrict __save_ptr) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2, 3))); # 397 "/usr/include/string.h" 3 4 extern size_t strlen (__const char *__s) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern size_t strnlen (__const char *__string, size_t __maxlen) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern char *strerror (int __errnum) __attribute__ ((__nothrow__)); # 427 "/usr/include/string.h" 3 4 extern int strerror_r (int __errnum, char *__buf, size_t __buflen) __asm__ ("" "__xpg_strerror_r") __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (2))); # 445 "/usr/include/string.h" 3 4 extern char *strerror_l (int __errnum, __locale_t __l) __attribute__ ((__nothrow__)); extern void __bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern void bcopy (__const void *__src, void *__dest, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern void bzero (void *__s, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1))); extern int bcmp (__const void *__s1, __const void *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 489 "/usr/include/string.h" 3 4 extern char *index (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); # 517 "/usr/include/string.h" 3 4 extern char *rindex (__const char *__s, int __c) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1))); extern int ffs (int __i) __attribute__ ((__nothrow__)) __attribute__ ((__const__)); # 536 "/usr/include/string.h" 3 4 extern int strcasecmp (__const char *__s1, __const char *__s2) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); extern int strncasecmp (__const char *__s1, __const char *__s2, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__pure__)) __attribute__ ((__nonnull__ (1, 2))); # 559 "/usr/include/string.h" 3 4 extern char *strsep (char **__restrict __stringp, __const char *__restrict __delim) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *strsignal (int __sig) __attribute__ ((__nothrow__)); extern char *__stpcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *stpcpy (char *__restrict __dest, __const char *__restrict __src) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *__stpncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); extern char *stpncpy (char *__restrict __dest, __const char *__restrict __src, size_t __n) __attribute__ ((__nothrow__)) __attribute__ ((__nonnull__ (1, 2))); # 646 "/usr/include/string.h" 3 4 # 45 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 73 "/home/thl/petsc/fast_double/include/superlu_defs.h" typedef int int_t; # 1 "/home/thl/petsc/fast_double/include/superlu_enum_consts.h" 1 # 26 "/home/thl/petsc/fast_double/include/superlu_enum_consts.h" typedef enum {NO, YES} yes_no_t; typedef enum {DOFACT, SamePattern, SamePattern_SameRowPerm, FACTORED} fact_t; typedef enum {NOROWPERM, LargeDiag, MY_PERMR} rowperm_t; typedef enum {NATURAL, MMD_ATA, MMD_AT_PLUS_A, COLAMD, METIS_AT_PLUS_A, PARMETIS, ZOLTAN, MY_PERMC} colperm_t; typedef enum {NOTRANS, TRANS, CONJ} trans_t; typedef enum {NOEQUIL, ROW, COL, BOTH} DiagScale_t; typedef enum {NOREFINE, SLU_SINGLE=1, SLU_DOUBLE, SLU_EXTRA} IterRefine_t; typedef enum {LUSUP, UCOL, LSUB, USUB, LLVL, ULVL} MemType; typedef enum {HEAD, TAIL} stack_end_t; typedef enum {SYSTEM, USER} LU_space_t; typedef enum {ONE_NORM, TWO_NORM, INF_NORM} norm_t; typedef enum {SILU, SMILU_1, SMILU_2, SMILU_3} milu_t; # 60 "/home/thl/petsc/fast_double/include/superlu_enum_consts.h" typedef enum { COLPERM, ROWPERM, RELAX, ETREE, EQUIL, SYMBFAC, DIST, FACT, COMM, SOL_COMM, RCOND, SOLVE, REFINE, TRSV, GEMV, FERR, NPHASES } PhaseType; # 79 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/home/thl/petsc/fast_double/include/Cnames.h" 1 # 80 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/home/thl/petsc/fast_double/include/supermatrix.h" 1 # 22 "/home/thl/petsc/fast_double/include/supermatrix.h" typedef enum { SLU_NC, SLU_NCP, SLU_NR, SLU_SC, SLU_SCP, SLU_SR, SLU_DN, SLU_NR_loc } Stype_t; typedef enum { SLU_S, SLU_D, SLU_C, SLU_Z } Dtype_t; typedef enum { SLU_GE, SLU_TRLU, SLU_TRUU, SLU_TRL, SLU_TRU, SLU_SYL, SLU_SYU, SLU_HEL, SLU_HEU } Mtype_t; typedef struct { Stype_t Stype; Dtype_t Dtype; Mtype_t Mtype; int_t nrow; int_t ncol; void *Store; } SuperMatrix; typedef struct { int_t nnz; void *nzval; int_t *rowind; int_t *colptr; } NCformat; typedef struct { int_t nnz; void *nzval; int_t *colind; int_t *rowptr; } NRformat; typedef struct { int_t nnz; int_t nsuper; void *nzval; int_t *nzval_colptr; int_t *rowind; int_t *rowind_colptr; int_t *col_to_sup; int_t *sup_to_col; # 118 "/home/thl/petsc/fast_double/include/supermatrix.h" } SCformat; typedef struct { int_t nnz; int_t nsuper; void *nzval; int_t *nzval_colbeg; int_t *nzval_colend; int_t *rowind; int_t *rowind_colbeg; int_t *rowind_colend; int_t *col_to_sup; int_t *sup_to_colbeg; int_t *sup_to_colend; # 150 "/home/thl/petsc/fast_double/include/supermatrix.h" } SCPformat; typedef struct { int_t nnz; void *nzval; int_t *rowind; int_t *colbeg; int_t *colend; } NCPformat; typedef struct { int_t lda; void *nzval; } DNformat; typedef struct { int_t nnz_loc; int_t m_loc; int_t fst_row; void *nzval; int_t *rowptr; int_t *colind; } NRformat_loc; # 81 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/home/thl/petsc/fast_double/include/util_dist.h" 1 # 21 "/home/thl/petsc/fast_double/include/util_dist.h" # 1 "/usr/include/assert.h" 1 3 4 # 66 "/usr/include/assert.h" 3 4 extern void __assert_fail (__const char *__assertion, __const char *__file, unsigned int __line, __const char *__function) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern void __assert_perror_fail (int __errnum, __const char *__file, unsigned int __line, __const char *__function) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); extern void __assert (const char *__assertion, const char *__file, int __line) __attribute__ ((__nothrow__)) __attribute__ ((__noreturn__)); # 22 "/home/thl/petsc/fast_double/include/util_dist.h" 2 # 73 "/home/thl/petsc/fast_double/include/util_dist.h" typedef float flops_t; typedef unsigned char Logical; typedef struct { int *panel_histo; double *utime; flops_t *ops; int TinyPivots; int RefineSteps; int num_look_aheads; float current_buffer; float peak_buffer; float gpu_buffer; } SuperLUStat_t; typedef struct e_node { int size; void *mem; } ExpHeader; typedef struct { int size; int used; int top1; int top2; void *array; } LU_stack_t; # 82 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 1 "/home/thl/petsc/fast_double/include/psymbfact.h" 1 # 57 "/home/thl/petsc/fast_double/include/psymbfact.h" typedef struct { int_t *xlsub; int_t *lsub; int_t szLsub; int_t *xusub; int_t *usub; int_t szUsub; int_t *supno_loc; int_t *xsup_beg_loc; int_t *xsup_end_loc; int_t nvtcs_loc; int_t *globToLoc; int_t maxNvtcsPProc; } Pslu_freeable_t; # 105 "/home/thl/petsc/fast_double/include/psymbfact.h" typedef struct { int_t *xlsubPr; int_t *lsubPr; int_t szLsubPr; int_t indLsubPr; int_t *xusubPr; int_t *usubPr; int_t szUsubPr; int_t indUsubPr; int_t *xlsub_rcvd; int_t *xlsub; int_t *lsub; int_t szLsub; int_t nextl; int_t *xusub_rcvd; int_t *xusub; int_t *usub; int_t szUsub; int_t nextu; int_t *cntelt_vtcs; int_t *cntelt_vtcsA_lvl; LU_space_t MemModel; int_t no_expand; int_t no_expand_pr; int_t no_expcp; } Llu_symbfact_t; typedef struct { int_t maxSzBlk; int_t maxNvtcsNds_loc; int_t maxNeltsVtx; int_t nblks_loc; int_t *begEndBlks_loc; int_t curblk_loc; int_t nvtcs_loc; int_t nvtcsLvl_loc; int filledSep; int_t nnz_asup_loc; int_t nnz_ainf_loc; int_t xusub_nextLvl; int_t xlsub_nextLvl; int_t fstVtx_nextLvl; } vtcsInfo_symbfact_t; typedef struct { int_t *x_ainf; int_t *ind_ainf; int_t *x_asup; int_t *ind_asup; } matrix_symbfact_t; typedef struct { int_t *rcv_interLvl; int_t *snd_interLvl; int_t *snd_interSz; int_t *snd_LinterSz; int_t *snd_vtxinter; int_t *snd_intraLvl; int_t snd_intraSz; int_t snd_LintraSz; int_t *rcv_intraLvl; int_t *rcv_buf; int_t rcv_bufSz; int_t *snd_buf; int_t snd_bufSz; int_t *ptr_rcvBuf; } comm_symbfact_t; typedef struct { int_t fill_par; float relax_seps; float relax_curSep; float relax_gen; float nops; int_t nDnsCurSep; int_t nDnsUpSeps; float no_shmSnd; float no_msgsSnd; int_t maxsz_msgSnd; float sz_msgsSnd; float no_shmRcvd; float no_msgsRcvd; int_t maxsz_msgRcvd; float sz_msgsRcvd; float no_msgsCol; int_t maxsz_msgCol; float sz_msgsCol; float fill_pelt[6]; # 234 "/home/thl/petsc/fast_double/include/psymbfact.h" int_t estimLSz; int_t estimUSz; int_t maxSzLPr; int_t maxSzUPr; int_t maxSzBuf; int_t szDnsSep; float allocMem; } psymbfact_stat_t; # 83 "/home/thl/petsc/fast_double/include/superlu_defs.h" 2 # 258 "/home/thl/petsc/fast_double/include/superlu_defs.h" typedef struct { MPI_Comm comm; int Np; int Iam; } superlu_scope_t; typedef struct { MPI_Comm comm; superlu_scope_t rscp; superlu_scope_t cscp; int iam; int_t nprow; int_t npcol; } gridinfo_t; # 288 "/home/thl/petsc/fast_double/include/superlu_defs.h" typedef struct { int_t *xsup; int_t *supno; } Glu_persist_t; # 343 "/home/thl/petsc/fast_double/include/superlu_defs.h" typedef struct { int_t *lsub; int_t *xlsub; int_t *usub; int_t *xusub; int_t nzlmax; int_t nzumax; LU_space_t MemModel; int_t *llvl; int_t *ulvl; } Glu_freeable_t; # 393 "/home/thl/petsc/fast_double/include/superlu_defs.h" typedef struct { DiagScale_t DiagScale; double *R; double *C; int_t *perm_r; int_t *perm_c; } ScalePermstruct_t; typedef struct { int *B_to_X_SendCnt; int *X_to_B_SendCnt; int *ptr_to_ibuf, *ptr_to_dbuf; int *X_to_B_iSendCnt; int *X_to_B_vSendCnt; int *disp_ibuf; int_t *send_ibuf; void *send_dbuf; int_t x2b, b2x; int_t *send_ibuf2; int_t *recv_ibuf2; void *send_dbuf2; void *recv_dbuf2; } pxgstrs_comm_t; # 559 "/home/thl/petsc/fast_double/include/superlu_defs.h" typedef struct { fact_t Fact; yes_no_t Equil; colperm_t ColPerm; trans_t Trans; IterRefine_t IterRefine; double DiagPivotThresh; yes_no_t SymmetricMode; yes_no_t PivotGrowth; yes_no_t ConditionNumber; rowperm_t RowPerm; int ILU_DropRule; double ILU_DropTol; double ILU_FillFactor; norm_t ILU_Norm; double ILU_FillTol; milu_t ILU_MILU; double ILU_MILU_Dim; yes_no_t ParSymbFact; yes_no_t ReplaceTinyPivot; yes_no_t SolveInitialized; yes_no_t RefineInitialized; yes_no_t PrintStat; int nnzL, nnzU; int num_lookaheads; yes_no_t lookahead_etree; yes_no_t SymPattern; } superlu_dist_options_t; typedef struct { float for_lu; float total; int_t expansions; long long int nnzL, nnzU; } superlu_dist_mem_usage_t; typedef struct { int_t rukp; int_t iukp; int_t jb; int_t full_u_cols; } Ublock_info_t; typedef struct { int_t lptr; int_t ib; int_t FullRow; } Remain_info_t; typedef struct { int id, key; void *next; } etree_node; struct superlu_pair { int ind; int val; }; # 636 "/home/thl/petsc/fast_double/include/superlu_defs.h" extern void set_default_options_dist(superlu_dist_options_t *); extern void superlu_gridinit(MPI_Comm, int_t, int_t, gridinfo_t *); extern void superlu_gridmap(MPI_Comm, int_t, int_t, int_t [], int_t, gridinfo_t *); extern void superlu_gridexit(gridinfo_t *); extern void print_options_dist(superlu_dist_options_t *); extern void print_sp_ienv_dist(superlu_dist_options_t *); extern void Destroy_CompCol_Matrix_dist(SuperMatrix *); extern void Destroy_SuperNode_Matrix_dist(SuperMatrix *); extern void Destroy_SuperMatrix_Store_dist(SuperMatrix *); extern void Destroy_CompCol_Permuted_dist(SuperMatrix *); extern void Destroy_CompRowLoc_Matrix_dist(SuperMatrix *); extern void Destroy_CompRow_Matrix_dist(SuperMatrix *); extern void sp_colorder (superlu_dist_options_t*, SuperMatrix*, int_t*, int_t*, SuperMatrix*); extern int sp_symetree_dist(int_t *, int_t *, int_t *, int_t, int_t *); extern int sp_coletree_dist (int_t *, int_t *, int_t *, int_t, int_t, int_t *); extern void get_perm_c_dist(int_t, int_t, SuperMatrix *, int_t *); extern void at_plus_a_dist(const int_t, const int_t, int_t *, int_t *, int_t *, int_t **, int_t **); extern int genmmd_dist_(int_t *, int_t *, int_t *a, int_t *, int_t *, int_t *, int_t *, int_t *, int_t *, int_t *, int_t *, int_t *); extern void bcast_tree(void *, int, MPI_Datatype, int, int, gridinfo_t *, int, int *); extern int_t symbfact(superlu_dist_options_t *, int, SuperMatrix *, int_t *, int_t *, Glu_persist_t *, Glu_freeable_t *); extern int_t symbfact_SubInit(fact_t, void *, int_t, int_t, int_t, int_t, Glu_persist_t *, Glu_freeable_t *); extern int_t symbfact_SubXpand(int_t, int_t, int_t, MemType, int_t *, Glu_freeable_t *); extern int_t symbfact_SubFree(Glu_freeable_t *); extern void countnz_dist (const int_t, int_t *, long long int *, long long int *, Glu_persist_t *, Glu_freeable_t *); extern long long int fixupL_dist (const int_t, const int_t *, Glu_persist_t *, Glu_freeable_t *); extern int_t *TreePostorder_dist (int_t, int_t *); extern float smach_dist(char *); extern double dmach_dist(char *); extern void *superlu_malloc_dist (size_t); extern void superlu_free_dist (void*); extern int_t *intMalloc_dist (int_t); extern int_t *intCalloc_dist (int_t); extern int_t mc64id_dist(int_t *); extern void arrive_at_ublock (int_t, int_t *, int_t *, int_t *, int_t *, int_t *, int_t, int_t, int_t *, int_t *, int_t *, gridinfo_t *); extern int_t estimate_bigu_size (int_t, int_t, int_t **, Glu_persist_t *, gridinfo_t *, int_t *); extern double SuperLU_timer_dist_ (); extern void superlu_abort_and_exit_dist(char *); extern int_t sp_ienv_dist (int_t); extern void ifill_dist (int_t *, int_t, int_t); extern void super_stats_dist (int_t, int_t *); extern void ScalePermstructInit(const int_t, const int_t, ScalePermstruct_t *); extern void ScalePermstructFree(ScalePermstruct_t *); extern void get_diag_procs(int_t, Glu_persist_t *, gridinfo_t *, int_t *, int_t **, int_t **); extern int_t QuerySpace_dist(int_t, int_t, Glu_freeable_t *, superlu_dist_mem_usage_t *); extern int xerr_dist (char *, int *); extern void pxerr_dist (char *, gridinfo_t *, int_t); extern void PStatInit(SuperLUStat_t *); extern void PStatFree(SuperLUStat_t *); extern void PStatPrint(superlu_dist_options_t *, SuperLUStat_t *, gridinfo_t *); extern void log_memory(long long, SuperLUStat_t *); extern void print_memorylog(SuperLUStat_t *, char *); extern float symbfact_dist (int, int, SuperMatrix *, int_t *, int_t *, int_t *, int_t *, Pslu_freeable_t *, MPI_Comm *, MPI_Comm *, superlu_dist_mem_usage_t *); extern float get_perm_c_parmetis (SuperMatrix *, int_t *, int_t *, int, int, int_t **, int_t **, gridinfo_t *, MPI_Comm *); extern int_t psymbfact_LUXpandMem (int_t, int_t, int_t, int_t, int_t, int_t, int_t, int_t, Pslu_freeable_t *, Llu_symbfact_t *, vtcsInfo_symbfact_t *, psymbfact_stat_t *); extern int_t psymbfact_LUXpand (int_t, int_t, int_t, int_t, int_t *, int_t, int_t, int_t, int_t, Pslu_freeable_t *, Llu_symbfact_t *, vtcsInfo_symbfact_t *, psymbfact_stat_t *); extern int_t psymbfact_LUXpand_RL (int_t, int_t, int_t, int_t, int_t, int_t, Pslu_freeable_t *, Llu_symbfact_t *, vtcsInfo_symbfact_t *, psymbfact_stat_t *); extern int_t psymbfact_prLUXpand (int_t, int_t, int, Llu_symbfact_t *, psymbfact_stat_t *); # 742 "/home/thl/petsc/fast_double/include/superlu_defs.h" extern int get_thread_per_process(); extern int_t get_max_buffer_size (); extern int_t get_min (int_t *, int_t); extern int compare_pair (const void *, const void *); extern int_t static_partition (struct superlu_pair *, int_t, int_t *, int_t, int_t *, int_t *, int); extern void print_panel_seg_dist(int_t, int_t, int_t, int_t, int_t *, int_t *); extern void check_repfnz_dist(int_t, int_t, int_t, int_t *); extern int_t CheckZeroDiagonal(int_t, int_t *, int_t *, int_t *); extern void PrintDouble5(char *, int_t, double *); extern void PrintInt10(char *, int_t, int_t *); extern void PrintInt32(char *, int, int *); extern int file_PrintInt10(FILE *, char *, int_t, int_t *); extern int file_PrintInt32(FILE *, char *, int, int *); extern int file_PrintLong10(FILE *, char *, int_t, int_t *); # 34 "/home/thl/petsc/fast_double/include/superlu_ddefs.h" 2 typedef struct { int_t lbnum; int_t indpos; } Ucb_indptr_t; typedef struct { int_t **Lrowind_bc_ptr; double **Lnzval_bc_ptr; int_t **Ufstnz_br_ptr; double **Unzval_br_ptr; int_t *Lsub_buf_2[50]; double *Lval_buf_2[50]; int_t *Usub_buf_2[50]; double *Uval_buf_2[50]; double *ujrow; int_t bufmax[5]; # 71 "/home/thl/petsc/fast_double/include/superlu_ddefs.h" int *ToRecv; int *ToSendD; int **ToSendR; int_t *fmod; int_t **fsendx_plist; int_t *frecv; int_t nfrecvx; int_t nfsendx; int_t *bmod; int_t **bsendx_plist; int_t *brecv; int_t nbrecvx; int_t nbsendx; int_t *mod_bit; int_t *ilsum; int_t ldalsum; int_t SolveMsgSent; int_t SolveMsgVol; int_t UT_SOLVE; int_t L_SOLVE; int_t FRECV; int_t ut_ldalsum; int_t *ut_ilsum; int_t *utmod; int_t **ut_sendx_plist; int_t *utrecv; int_t n_utsendx; int_t n_utrecvx; int_t n_utrecvmod; int_t nroot; int_t *ut_modbit; int_t *Urbs; Ucb_indptr_t **Ucb_indptr; int_t **Ucb_valptr; int_t n; int_t nleaf; int_t nfrecvmod; } LocalLU_t; typedef struct { int_t *etree; Glu_persist_t *Glu_persist; LocalLU_t *Llu; } LUstruct_t; typedef struct { int_t *extern_start; int_t *ind_tosend; int_t *ind_torecv; int_t *ptr_ind_tosend; int_t *ptr_ind_torecv; int *SendCounts; int *RecvCounts; double *val_tosend; double *val_torecv; int_t TotalIndSend; int_t TotalValSend; } pdgsmv_comm_t; typedef struct { int_t *row_to_proc; int_t *inv_perm_c; int_t num_diag_procs, *diag_procs, *diag_len; pdgsmv_comm_t *gsmv_comm; pxgstrs_comm_t *gstrs_comm; int_t *A_colind_gsmv; } SOLVEstruct_t; # 178 "/home/thl/petsc/fast_double/include/superlu_ddefs.h" extern void dCreate_CompCol_Matrix_dist(SuperMatrix *, int_t, int_t, int_t, double *, int_t *, int_t *, Stype_t, Dtype_t, Mtype_t); extern void dCreate_CompRowLoc_Matrix_dist(SuperMatrix *, int_t, int_t, int_t, int_t, int_t, double *, int_t *, int_t *, Stype_t, Dtype_t, Mtype_t); extern void dCompRow_to_CompCol_dist(int_t, int_t, int_t, double *, int_t *, int_t *, double **, int_t **, int_t **); extern int pdCompRow_loc_to_CompCol_global(int_t, SuperMatrix *, gridinfo_t *, SuperMatrix *); extern void dCopy_CompCol_Matrix_dist(SuperMatrix *, SuperMatrix *); extern void dCreate_Dense_Matrix_dist(SuperMatrix *, int_t, int_t, double *, int_t, Stype_t, Dtype_t, Mtype_t); extern void dCreate_SuperNode_Matrix_dist(SuperMatrix *, int_t, int_t, int_t, double *, int_t *, int_t *, int_t *, int_t *, int_t *, Stype_t, Dtype_t, Mtype_t); extern void dCopy_Dense_Matrix_dist(int_t, int_t, double *, int_t, double *, int_t); extern void dallocateA_dist (int_t, int_t, double **, int_t **, int_t **); extern void dGenXtrue_dist (int_t, int_t, double *, int_t); extern void dFillRHS_dist (char *, int_t, double *, int_t, SuperMatrix *, double *, int_t); extern int dcreate_matrix(SuperMatrix *, int, double **, int *, double **, int *, FILE *, gridinfo_t *); extern int dcreate_matrix_rb(SuperMatrix *, int, double **, int *, double **, int *, FILE *, gridinfo_t *); extern int dcreate_matrix_dat(SuperMatrix *, int, double **, int *, double **, int *, FILE *, gridinfo_t *); extern void dgsequ_dist (SuperMatrix *, double *, double *, double *, double *, double *, int_t *); extern double dlangs_dist (char *, SuperMatrix *); extern void dlaqgs_dist (SuperMatrix *, double *, double *, double, double, double, char *); extern void pdgsequ (SuperMatrix *, double *, double *, double *, double *, double *, int_t *, gridinfo_t *); extern double pdlangs (char *, SuperMatrix *, gridinfo_t *); extern void pdlaqgs (SuperMatrix *, double *, double *, double, double, double, char *); extern int pdPermute_Dense_Matrix(int_t, int_t, int_t [], int_t[], double [], int, double [], int, int, gridinfo_t *); extern int sp_dtrsv_dist (char *, char *, char *, SuperMatrix *, SuperMatrix *, double *, int *); extern int sp_dgemv_dist (char *, double, SuperMatrix *, double *, int, double, double *, int); extern int sp_dgemm_dist (char *, int, double, SuperMatrix *, double *, int, double, double *, int); extern float ddistribute(fact_t, int_t, SuperMatrix *, Glu_freeable_t *, LUstruct_t *, gridinfo_t *); extern void pdgssvx_ABglobal(superlu_dist_options_t *, SuperMatrix *, ScalePermstruct_t *, double *, int, int, gridinfo_t *, LUstruct_t *, double *, SuperLUStat_t *, int *); extern float pddistribute(fact_t, int_t, SuperMatrix *, ScalePermstruct_t *, Glu_freeable_t *, LUstruct_t *, gridinfo_t *); extern void pdgssvx(superlu_dist_options_t *, SuperMatrix *, ScalePermstruct_t *, double *, int, int, gridinfo_t *, LUstruct_t *, SOLVEstruct_t *, double *, SuperLUStat_t *, int *); extern int dSolveInit(superlu_dist_options_t *, SuperMatrix *, int_t [], int_t [], int_t, LUstruct_t *, gridinfo_t *, SOLVEstruct_t *); extern void dSolveFinalize(superlu_dist_options_t *, SOLVEstruct_t *); extern int_t pxgstrs_init(int_t, int_t, int_t, int_t, int_t [], int_t [], gridinfo_t *grid, Glu_persist_t *, SOLVEstruct_t *); extern void pxgstrs_finalize(pxgstrs_comm_t *); extern int dldperm_dist(int_t, int_t, int_t, int_t [], int_t [], double [], int_t *, double [], double []); extern int static_schedule(superlu_dist_options_t *, int, int, LUstruct_t *, gridinfo_t *, SuperLUStat_t *, int_t *, int_t *, int *); extern void LUstructInit(const int_t, LUstruct_t *); extern void LUstructFree(LUstruct_t *); extern void Destroy_LU(int_t, gridinfo_t *, LUstruct_t *); extern int_t pdgstrf(superlu_dist_options_t *, int, int, double, LUstruct_t*, gridinfo_t*, SuperLUStat_t*, int*); extern void pdgstrs_Bglobal(int_t, LUstruct_t *, gridinfo_t *, double *, int_t, int, SuperLUStat_t *, int *); extern void pdgstrs(int_t, LUstruct_t *, ScalePermstruct_t *, gridinfo_t *, double *, int_t, int_t, int_t, int, SOLVEstruct_t *, SuperLUStat_t *, int *); extern void dlsum_fmod(double *, double *, double *, double *, int, int, int_t , int_t *, int_t, int_t, int_t, int_t *, gridinfo_t *, LocalLU_t *, MPI_Request [], SuperLUStat_t *); extern void dlsum_bmod(double *, double *, double *, int, int_t, int_t *, int_t *, Ucb_indptr_t **, int_t **, int_t *, gridinfo_t *, LocalLU_t *, MPI_Request [], SuperLUStat_t *); extern void pdgsrfs(int_t, SuperMatrix *, double, LUstruct_t *, ScalePermstruct_t *, gridinfo_t *, double [], int_t, double [], int_t, int, SOLVEstruct_t *, double *, SuperLUStat_t *, int *); extern void pdgsrfs_ABXglobal(int_t, SuperMatrix *, double, LUstruct_t *, gridinfo_t *, double *, int_t, double *, int_t, int, double *, SuperLUStat_t *, int *); extern int pdgsmv_AXglobal_setup(SuperMatrix *, Glu_persist_t *, gridinfo_t *, int_t *, int_t *[], double *[], int_t *[], int_t []); extern int pdgsmv_AXglobal(int_t, int_t [], double [], int_t [], double [], double []); extern int pdgsmv_AXglobal_abs(int_t, int_t [], double [], int_t [], double [], double []); extern void pdgsmv_init(SuperMatrix *, int_t *, gridinfo_t *, pdgsmv_comm_t *); extern void pdgsmv(int_t, SuperMatrix *, gridinfo_t *, pdgsmv_comm_t *, double x[], double ax[]); extern void pdgsmv_finalize(pdgsmv_comm_t *); extern double *doubleMalloc_dist(int_t); extern double *doubleCalloc_dist(int_t); extern void *duser_malloc_dist (int_t, int_t); extern void duser_free_dist (int_t, int_t); extern int_t dQuerySpace_dist(int_t, LUstruct_t *, gridinfo_t *, SuperLUStat_t *, superlu_dist_mem_usage_t *); extern void dfill_dist (double *, int_t, double); extern void dinf_norm_error_dist (int_t, int_t, double*, int_t, double*, int_t, gridinfo_t*); extern void pdinf_norm_error(int, int_t, int_t, double [], int_t, double [], int_t , gridinfo_t *); extern void dreadhb_dist (int, FILE *, int_t *, int_t *, int_t *, double **, int_t **, int_t **); extern void dreadtriple_dist(FILE *, int_t *, int_t *, int_t *, double **, int_t **, int_t **); extern void dreadrb_dist(int, FILE *, int_t *, int_t *, int_t *, double **, int_t **, int_t **); extern void dreadMM_dist(FILE *, int_t *, int_t *, int_t *, double **, int_t **, int_t **); extern float ddist_psymbtonum(fact_t, int_t, SuperMatrix *, ScalePermstruct_t *, Pslu_freeable_t *, LUstruct_t *, gridinfo_t *); extern void pdGetDiagU(int_t, LUstruct_t *, gridinfo_t *, double *); extern void dPrintLblocks(int, int_t, gridinfo_t *, Glu_persist_t *, LocalLU_t *); extern void dPrintUblocks(int, int_t, gridinfo_t *, Glu_persist_t *, LocalLU_t *); extern void dPrint_CompCol_Matrix_dist(SuperMatrix *); extern void dPrint_Dense_Matrix_dist(SuperMatrix *); extern int dPrint_CompRowLoc_Matrix_dist(SuperMatrix *); extern int file_PrintDouble5(FILE *, char *, int_t, double *); # 362 "/home/thl/petsc/fast_double/include/superlu_ddefs.h" extern int dgemm_(const char*, const char*, const int*, const int*, const int*, const double*, const double*, const int*, const double*, const int*, const double*, double*, const int*); extern int dtrsv_(char*, char*, char*, int*, double*, int*, double*, int*); extern int dtrsm_(char*, char*, char*, char*, int*, int*, double*, double*, int*, double*, int*); extern int dgemv_(char *, int *, int *, double *, double *a, int *, double *, int *, double *, double *, int *); extern void dger_(int*, int*, double*, double*, int*, double*, int*, double*, int*); # 3 "/tmp/petsc-n3SpCv/config.headers/conftest.c" 2 Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['superlu_ddefs.h'] in ['/home/thl/petsc/fast_double/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include', '/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib'] Popping language C ================================================================================ TEST checkSharedLibrary from config.packages.SuperLU_DIST(/global/home/thl/petsc/config/BuildSystem/config/package.py:792) TESTING: checkSharedLibrary from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:792) By default we don't care about checking if the library is shared Popping language C ================================================================================ TEST configureRegression from PETSc.Regression(/global/home/thl/petsc/config/PETSc/Regression.py:36) TESTING: configureRegression from PETSc.Regression(config/PETSc/Regression.py:36) Output a file listing the jobs that should be run by the PETSc buildtest Defined make macro "TEST_RUNS" to "C C_Info C_NotSingle C_X Fortran Fortran_NotSingle F90_NotSingle Fortran_NoComplex_NotSingle C_NoComplex_NotSingle METIS PARMETIS HDF5 SUPERLU_DIST Cxx F90 F90_NoComplex F2003 Fortran_NoComplex C_NoComplex DOUBLEINT32 Fortran_DOUBLEINT32" ================================================================================ TEST alternateConfigureLibrary from config.packages.SuperLU(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.SuperLU(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.SuiteSparse(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.SuiteSparse(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.PaStiX(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.PaStiX(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.scalapack(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.scalapack(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.strumpack(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.strumpack(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.MUMPS(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.MUMPS(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Trilinos(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Trilinos(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.xSDKTrilinos(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.xSDKTrilinos(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mstk(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.mstk(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.amanzi(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.amanzi(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Chombo(/global/home/thl/petsc/config/BuildSystem/config/package.py:796) TESTING: alternateConfigureLibrary from config.packages.Chombo(config/BuildSystem/config/package.py:796) Called if --with-packagename=0; does nothing by default ================================================================================ TEST configureRTLDDefault from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:846) TESTING: configureRTLDDefault from PETSc.Configure(config/PETSc/Configure.py:846) All intermediate test results are stored in /tmp/petsc-n3SpCv/PETSc.Configure Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:4:15: error: ‘RTLD_DEFAULT’ undeclared here (not in a function) void *ptr = RTLD_DEFAULT; ^ Source: #include "confdefs.h" #include "conffix.h" #include void *ptr = RTLD_DEFAULT; int main() { ; return 0; } ================================================================================ TEST configurePrefetch from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:654) TESTING: configurePrefetch from PETSc.Configure(config/PETSc/Configure.py:654) Sees if there are any prefetch functions supported Executing: uname -s stdout: Linux Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { void *v = 0;_mm_prefetch((const char*)v,_MM_HINT_NTA); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_XMMINTRIN_H" to "1" Defined "Prefetch(a,b,c)" to "_mm_prefetch((const char*)(a),(c))" Defined "PREFETCH_HINT_NTA" to "_MM_HINT_NTA" Defined "PREFETCH_HINT_T0" to "_MM_HINT_T0" Defined "PREFETCH_HINT_T1" to "_MM_HINT_T1" Defined "PREFETCH_HINT_T2" to "_MM_HINT_T2" Popping language C ================================================================================ TEST configureUnused from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:715) TESTING: configureUnused from PETSc.Configure(config/PETSc/Configure.py:715) Sees if __attribute((unused)) is supported Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:7:5: warning: unused variable ‘j’ [-Wunused-variable] int j = myfunc(&i); ^ Source: #include "confdefs.h" #include "conffix.h" __attribute((unused)) static int myfunc(__attribute((unused)) void *name){ return 1;} int main() { int i = 0; int j = myfunc(&i); typedef void* atype; __attribute((unused)) atype a; ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "UNUSED" to "__attribute((unused))" Popping language C ================================================================================ TEST configureDeprecated from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:733) TESTING: configureDeprecated from PETSc.Configure(config/PETSc/Configure.py:733) Check if __attribute((deprecated)) is supported Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:3:38: warning: ‘myfunc’ defined but not used [-Wunused-function] __attribute((deprecated)) static int myfunc(void) { return 1;} ^ Source: #include "confdefs.h" #include "conffix.h" __attribute((deprecated)) static int myfunc(void) { return 1;} int main() { ; return 0; } Defined "DEPRECATED(why)" to "__attribute((deprecated))" Popping language C ================================================================================ TEST configureIsatty from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:727) TESTING: configureIsatty from PETSc.Configure(config/PETSc/Configure.py:727) Check if the Unix C function isatty() works correctly Actually just assumes it does not work correctly on batch systems Defined "USE_ISATTY" to "1" ================================================================================ TEST configureExpect from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:800) TESTING: configureExpect from PETSc.Configure(config/PETSc/Configure.py:800) Sees if the __builtin_expect directive is supported Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__builtin_expect(0,1)) return 1;; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_BUILTIN_EXPECT" to "1" Popping language C ================================================================================ TEST configureAlign from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:753) TESTING: configureAlign from PETSc.Configure(config/PETSc/Configure.py:753) Check if __attribute(align) is supported Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { struct mystruct {int myint;} __attribute((aligned(16))); FILE *f = fopen("conftestalign", "w"); if (!f) exit(1); fprintf(f, "%lu\n", (unsigned long)sizeof(struct mystruct)); ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Testing executable /tmp/petsc-n3SpCv/PETSc.Configure/conftest to see if it can be run Executing: /tmp/petsc-n3SpCv/PETSc.Configure/conftest Executing: /tmp/petsc-n3SpCv/PETSc.Configure/conftest Popping language C Defined "ATTRIBUTEALIGNED(size)" to "__attribute((aligned (size)))" Defined "HAVE_ATTRIBUTEALIGNED" to "1" ================================================================================ TEST configureFunctionName from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:807) TESTING: configureFunctionName from PETSc.Configure(config/PETSc/Configure.py:807) Sees if the compiler supports __func__ or a variant. Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language C Defined "FUNCTION_NAME_C" to "__func__" Pushing language Cxx Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC /tmp/petsc-n3SpCv/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Pushing language CXX Popping language CXX Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Popping language Cxx Defined "FUNCTION_NAME_CXX" to "__func__" ================================================================================ TEST configureIntptrt from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:824) TESTING: configureIntptrt from PETSc.Configure(config/PETSc/Configure.py:824) Determine what to use for uintptr_t Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:6:18: warning: unused variable ‘i’ [-Wunused-variable] int x; uintptr_t i = (uintptr_t)&x;; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int x; uintptr_t i = (uintptr_t)&x;; return 0; } Defined "UINTPTR_T" to "uintptr_t" Popping language C ================================================================================ TEST configureSolaris from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:851) TESTING: configureSolaris from PETSc.Configure(config/PETSc/Configure.py:851) Solaris specific stuff ================================================================================ TEST configureLinux from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:864) TESTING: configureLinux from PETSc.Configure(config/PETSc/Configure.py:864) Linux specific stuff Defined "HAVE_DOUBLE_ALIGN_MALLOC" to "1" ================================================================================ TEST configureWin32 from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:870) TESTING: configureWin32 from PETSc.Configure(config/PETSc/Configure.py:870) Win32 non-cygwin specific stuff Checking for functions [GetComputerName] in library ['Kernel32.lib'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetComputerName() { GetComputerName(NULL,NULL);; } int main() { _check_GetComputerName();; return 0; } Compile failed inside link Popping language C Checking for functions [GetComputerName] in library ['kernel32'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetComputerName() { GetComputerName(NULL,NULL);; } int main() { _check_GetComputerName();; return 0; } Compile failed inside link Popping language C Checking for functions [GetUserName] in library ['Advapi32.lib'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetUserName() { GetUserName(NULL,NULL);; } int main() { _check_GetUserName();; return 0; } Compile failed inside link Popping language C Checking for functions [GetUserName] in library ['advapi32'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetUserName() { GetUserName(NULL,NULL);; } int main() { _check_GetUserName();; return 0; } Compile failed inside link Popping language C Checking for functions [GetDC] in library ['User32.lib'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetDC() { GetDC(0);; } int main() { _check_GetDC();; return 0; } Compile failed inside link Popping language C Checking for functions [GetDC] in library ['user32'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetDC() { GetDC(0);; } int main() { _check_GetDC();; return 0; } Compile failed inside link Popping language C Checking for functions [CreateCompatibleDC] in library ['Gdi32.lib'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_CreateCompatibleDC() { CreateCompatibleDC(0);; } int main() { _check_CreateCompatibleDC();; return 0; } Compile failed inside link Popping language C Checking for functions [CreateCompatibleDC] in library ['gdi32'] [] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_CreateCompatibleDC() { CreateCompatibleDC(0);; } int main() { _check_CreateCompatibleDC();; return 0; } Compile failed inside link Popping language C Checking for type: int32_t Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.types/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/config.types/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/config.types/conftest.c:13:9: warning: unused variable ‘a’ [-Wunused-variable] int32_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #endif int main() { int32_t a;; return 0; } int32_t found Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:6:7: warning: unused variable ‘u’ [-Wunused-variable] uid_t u; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { uid_t u; ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:8:5: warning: unused variable ‘a’ [-Wunused-variable] int a=R_OK; ^ Source: #include "confdefs.h" #include "conffix.h" #if defined(PETSC_HAVE_UNISTD_H) #include #endif int main() { int a=R_OK; ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int a=0; if (S_ISDIR(a)){} ; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:3:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include int main() { LARGE_INTEGER a; DWORD b=a.u.HighPart; ; return 0; } Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 256 stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:3:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int flags = O_BINARY;; return 0; } Defined "PATH_SEPARATOR" to "':'" Defined "REPLACE_DIR_SEPARATOR" to "'\\'" Defined "DIR_SEPARATOR" to "'/'" Defined "DIR" to ""/home/thl/petsc"" Defined make macro "wPETSC_DIR" to "/home/thl/petsc" ================================================================================ TEST configureCygwinBrokenPipe from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:943) TESTING: configureCygwinBrokenPipe from PETSc.Configure(config/PETSc/Configure.py:943) Cygwin version <= 1.7.18 had issues with pipes and long commands invoked from gnu-make http://cygwin.com/ml/cygwin/2013-05/msg00340.html Executing: uname -s stdout: Linux ================================================================================ TEST configureDefaultArch from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:959) TESTING: configureDefaultArch from PETSc.Configure(config/PETSc/Configure.py:959) ================================================================================ TEST configureScript from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:976) TESTING: configureScript from PETSc.Configure(config/PETSc/Configure.py:976) Output a script in the conf directory which will reproduce the configuration ================================================================================ TEST configureInstall from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:1013) TESTING: configureInstall from PETSc.Configure(config/PETSc/Configure.py:1013) Setup the directories for installation Defined make rule "shared_install" with dependencies "" and code ['-@echo "Now to check if the libraries are working do:"', '-@echo "make PETSC_DIR=${PETSC_DIR} PETSC_ARCH=${PETSC_ARCH} test"', '-@echo "========================================="'] ================================================================================ TEST configureGCOV from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:1025) TESTING: configureGCOV from PETSc.Configure(config/PETSc/Configure.py:1025) ================================================================================ TEST configureFortranFlush from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:1030) TESTING: configureFortranFlush from PETSc.Configure(config/PETSc/Configure.py:1030) Checking for functions [flush_] in library [''] ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char flush_(); static void _check_flush_() { flush_(); } int main() { _check_flush_();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'flush_' collect2: error: ld returned 1 exit status Popping language C Checking for functions [flush__] in library [''] ['-Wl,-rpath,/opt/torque/lib', '-L/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lmpi_usempif08', '-lmpi_usempi_ignore_tkr', '-lmpi_mpifh', '-lgfortran', '-lm', '-Wl,-rpath,/opt/torque/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3', '-Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib', '-Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib', '-lgfortran', '-lm', '-lquadmath'] Pushing language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/config.libraries/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char flush__(); static void _check_flush__() { flush__(); } int main() { _check_flush__();; return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/config.libraries/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/config.libraries/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lgfortran -lm -lquadmath -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Possible ERROR while running linker: exit code 256 stderr: /tmp/petsc-n3SpCv/config.libraries/conftest.o:conftest.c:function main: error: undefined reference to 'flush__' collect2: error: ld returned 1 exit status Popping language C ================================================================================ TEST configureAtoll from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:710) TESTING: configureAtoll from PETSc.Configure(config/PETSc/Configure.py:710) Checks if atoll exists Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c: In function ‘main’: /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c:7:6: warning: unused variable ‘v’ [-Wunused-variable] long v = atoll("25"); ^ Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { long v = atoll("25"); return 0; } Pushing language C Popping language C Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl Defined "HAVE_ATOLL" to "1" ================================================================================ TEST configureViewFromOptions from PETSc.Configure(/global/home/thl/petsc/config/PETSc/Configure.py:1037) TESTING: configureViewFromOptions from PETSc.Configure(config/PETSc/Configure.py:1037) Defined make rule "remote" with dependencies "" and code [] Defined make rule "remoteclean" with dependencies "" and code [] Pushing language C Defined make macro "CC_FLAGS" to " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 " Popping language C Pushing language Cxx Defined "HAVE_CXX" to "1" Defined make macro "CXX_FLAGS" to " -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC " Popping language Cxx Defined make macro "CPP_FLAGS" to "" Pushing language C Defined make macro "PCC" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Defined make macro "PCC_FLAGS" to " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 " Popping language C Defined make macro "CC_SUFFIX" to "o" Pushing language C Defined make macro "PCC_LINKER" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Defined make macro "PCC_LINKER_FLAGS" to " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3" Popping language C Defined make macro "CC_LINKER_SUFFIX" to "" Pushing language FC Defined "HAVE_FORTRAN" to "1" Defined make macro "FPP_FLAGS" to "" Defined make macro "FC_FLAGS" to " -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 " Popping language FC Defined make macro "FC_SUFFIX" to "o" Pushing language FC Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -V Defined make macro "FC_LINKER" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90" Defined make macro "FC_LINKER_FLAGS" to " -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 " Popping language FC Defined make macro "FC_MODULE_FLAG" to "-I" Defined make macro "FC_MODULE_OUTPUT_FLAG" to "-J" Pushing language C Defined make macro "SL_LINKER" to "/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc" Defined make macro "SL_LINKER_FLAGS" to "${PCC_LINKER_FLAGS}" Popping language C Defined make macro "SL_LINKER_SUFFIX" to "so" Defined "SLSUFFIX" to ""so"" Defined make macro "SL_LINKER_LIBS" to "${PETSC_EXTERNAL_LIB_BASIC}" Defined make macro "PETSC_LANGUAGE" to "CONLY" Defined make macro "PETSC_SCALAR" to "real" Defined make macro "PETSC_PRECISION" to "double" Executing: CC -VV Defined "USE_SOCKET_VIEWER" to "1" Executing: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -c -o /tmp/petsc-n3SpCv/PETSc.Configure/conftest.o -I/tmp/petsc-n3SpCv/config.compilers -I/tmp/petsc-n3SpCv/config.utilities.closure -I/tmp/petsc-n3SpCv/config.headers -I/tmp/petsc-n3SpCv/config.utilities.cacheDetails -I/tmp/petsc-n3SpCv/config.atomics -I/tmp/petsc-n3SpCv/config.functions -I/tmp/petsc-n3SpCv/config.utilities.featureTestMacros -I/tmp/petsc-n3SpCv/config.utilities.missing -I/tmp/petsc-n3SpCv/PETSc.options.scalarTypes -I/tmp/petsc-n3SpCv/config.packages.MPI -I/tmp/petsc-n3SpCv/config.packages.pthread -I/tmp/petsc-n3SpCv/config.setCompilers -I/tmp/petsc-n3SpCv/config.packages.BlasLapack -I/tmp/petsc-n3SpCv/config.types -I/tmp/petsc-n3SpCv/config.libraries -I/tmp/petsc-n3SpCv/PETSc.Configure -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 /tmp/petsc-n3SpCv/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { setsockopt(0,SOL_SOCKET,SO_REUSEADDR,0,0); return 0; } Defined "HAVE_SO_REUSEADDR" to "1" Defined "HAVE_SUPERLU_DIST" to "1" Defined make macro "SUPERLU_DIST_LIB" to "-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lsuperlu_dist" Defined make macro "SUPERLU_DIST_INCLUDE" to "-I/home/thl/petsc/fast_double/include" Defined "HAVE_BLASLAPACK" to "1" Defined make macro "BLASLAPACK_LIB" to "-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -lfblas" Defined make macro "BLASLAPACK_INCLUDE" to "" Defined "HAVE_FBLASLAPACK" to "1" Defined make macro "FBLASLAPACK_LIB" to "" Defined make macro "FBLASLAPACK_INCLUDE" to "" Defined "HAVE_NETCDF" to "1" Defined make macro "NETCDF_LIB" to "-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -lnetcdf" Defined make macro "NETCDF_INCLUDE" to "-I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include" Defined "HAVE_HDF5" to "1" Defined make macro "HDF5_LIB" to "-Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5" Defined make macro "HDF5_INCLUDE" to "-I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include" Defined "HAVE_PARMETIS" to "1" Defined make macro "PARMETIS_LIB" to "-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis" Defined make macro "PARMETIS_INCLUDE" to "-I/home/thl/petsc/fast_double/include" Defined "HAVE_METIS" to "1" Defined make macro "METIS_LIB" to "-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis" Defined make macro "METIS_INCLUDE" to "-I/home/thl/petsc/fast_double/include" Defined "HAVE_ZLIB" to "1" Defined make macro "ZLIB_LIB" to "-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz" Defined make macro "ZLIB_INCLUDE" to "-I/home/thl/petsc/fast_double/include" Defined "HAVE_X" to "1" Defined make macro "X_LIB" to "-lX11" Defined make macro "X_INCLUDE" to "" Defined "HAVE_PTHREAD" to "1" Defined make macro "PTHREAD_LIB" to "-lpthread" Defined make macro "PTHREAD_INCLUDE" to "" Defined "HAVE_SOWING" to "1" Defined make macro "SOWING_LIB" to "" Defined make macro "SOWING_INCLUDE" to "" Defined "HAVE_MPI" to "1" Defined make macro "MPI_LIB" to "" Defined make macro "MPI_INCLUDE" to "" Defined make macro "PETSC_EXTERNAL_LIB_BASIC" to "-Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lsuperlu_dist -lflapack -lfblas -lnetcdf -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lparmetis -lmetis -lz -lX11 -lpthread -lm -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -lgfortran -lm -lquadmath -lmpi_cxx -lstdc++ -lm -ldl -lmpi -lgcc_s -ldl" Defined make macro "PETSC_CC_INCLUDES" to "-I/home/thl/petsc/include -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include" Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Pushing language FC Popping language FC Defined make macro "PETSC_FC_INCLUDES" to "-I/home/thl/petsc/include -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include" Defined make macro "DESTDIR" to "/home/thl/petsc/fast_double" Defined "LIB_DIR" to ""/home/thl/petsc/fast_double/lib"" Defined make macro "LIBNAME" to "${INSTALL_LIB_DIR}/libpetsc.${AR_LIB_SUFFIX}" Defined make macro "SHLIBS" to "libpetsc" Defined make macro "PETSC_LIB_BASIC" to "-lpetsc" Defined make macro "PETSC_KSP_LIB_BASIC" to "-lpetsc" Defined make macro "PETSC_TS_LIB_BASIC" to "-lpetsc" Defined make macro "PETSC_TAO_LIB_BASIC" to "-lpetsc" Defined make macro "PETSC_WITH_EXTERNAL_LIB" to "-L/home/thl/petsc/fast_double/lib -Wl,-rpath,/home/thl/petsc/fast_double/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lpetsc -lsuperlu_dist -lflapack -lfblas -lnetcdf -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lparmetis -lmetis -lz -lX11 -lpthread -lm -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -lgfortran -lm -lquadmath -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl " Defined "USE_SINGLE_LIBRARY" to "1" Defined make macro "PETSC_SYS_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_VEC_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_MAT_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_DM_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_KSP_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_SNES_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_TS_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_TAO_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_CHARACTERISTIC_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_CONTRIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "CONFIGURE_OPTIONS" to "-start-in-debugger --download-metis --download-parmetis --download-superlu_dist --with-fortran-datatypes --with-precison=double --with-debugging=0 --with-cc=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --with-fc=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --with-cxx=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --with-shared-libraries=0 -fPIC --download-fblaslapack=1 --with-fortran --with-fortran-interfaces --with-shared-libraries=1 --with-cmake=/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake --with-netcdf-dir= --download-zlib --with-hdf5-dir=/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/ --with-netcdf-dir=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/ COPTFLAGS=-O3 FOPTFLAGS=-O3" Pushing language C Popping language C Pushing language FC Popping language FC Pushing language C Popping language C Pushing language FC Popping language FC Executing: ['/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake', '--version'] stdout: cmake version 3.4.3 CMake suite maintained and supported by Kitware (kitware.com/cmake). Pushing language C Popping language C Pushing language FC Popping language FC Pushing language Cxx Popping language Cxx Contents of initial cache file /home/thl/petsc/fast_double/initial_cache_file.cmake : SET (CMAKE_C_COMPILER /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_C_FLAGS " -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 " CACHE STRING "Dummy comment" FORCE) SET (PETSC_CUDA_HOST_FLAGS ,-fPIC,-Wall,-Wwrite-strings,-Wno-strict-aliasing,-Wno-unknown-pragmas,-fstack-protector,-fvisibility=hidden,-O3 CACHE STRING "Dummy comment" FORCE) SET (CMAKE_Fortran_COMPILER /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_Fortran_FLAGS " -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 " CACHE STRING "Dummy comment" FORCE) SET (CMAKE_CXX_COMPILER /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_CXX_FLAGS " -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC " CACHE STRING "Dummy comment" FORCE) SET (CMAKE_AR /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_RANLIB /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib CACHE FILEPATH "Dummy comment" FORCE) Removing: /home/thl/petsc/fast_double/CMakeCache.txt Removing: /home/thl/petsc/fast_double/CMakeFiles/3.4.3 Invoking: ['/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake', '--trace', '--debug-output', '-C/home/thl/petsc/fast_double/initial_cache_file.cmake', '-DPETSC_CMAKE_ARCH:STRING=fast_double', '/home/thl/petsc'] Executing: ['/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake', '--trace', '--debug-output', '-C/home/thl/petsc/fast_double/initial_cache_file.cmake', '-DPETSC_CMAKE_ARCH:STRING=fast_double', '/home/thl/petsc'] stdout: Running with trace output on. Running with debug output on. loading initial cache file /home/thl/petsc/fast_double/initial_cache_file.cmake -- The C compiler identification is GNU 4.9.3 Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerId.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCompilerCommon.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Check for working C compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -- works Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCompilerCommon.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting C compiler ABI info Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerABI.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting C compiler ABI info - done Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerABI.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting C compile features Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompileFeatures.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting C compile features - done Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompileFeatures.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- The Fortran compiler identification is GNU 4.9.3 Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerId.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Check for working Fortran compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCompilerCommon.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Check for working Fortran compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -- works Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCompilerCommon.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting Fortran compiler ABI info Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerABI.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting Fortran compiler ABI info - done Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerABI.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Checking whether /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 supports Fortran 90 Called from: [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Checking whether /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 supports Fortran 90 -- yes Called from: [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestFortranCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- The CXX compiler identification is GNU 4.9.3 Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerId.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Check for working CXX compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCompilerCommon.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Check for working CXX compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -- works Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCompilerCommon.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting CXX compiler ABI info Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerABI.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting CXX compiler ABI info - done Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompilerABI.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting CXX compile features Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompileFeatures.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Detecting CXX compile features - done Called from: [3] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeDetermineCompileFeatures.cmake [2] /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/share/cmake-3.4/Modules/CMakeTestCXXCompiler.cmake [1] /home/thl/petsc/CMakeLists.txt -- Configuring done -- Generating /global/home/thl/petsc/fast_double Called from: [1] /home/thl/petsc/CMakeLists.txt -- Generating done -- Build files have been written to: /global/home/thl/petsc/fast_double CMake configured successfully, using as default build Defined make macro "PETSC_BUILD_USING_CMAKE" to "1" Pushing language C Popping language C Pushing language FC Popping language FC ================================================================================ **** fast_double/lib/petsc/conf/petscvariables **** MPICXX_SHOW = g++ -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_cxx -lmpi C_DEPFLAGS = -MMD -MP FC_DEFINE_FLAG = -D MPICC_SHOW = gcc -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi AR_FLAGS = cr CXX_DEPFLAGS = -MMD -MP FC_DEPFLAGS = -MMD -MP MPIFC_SHOW = gfortran -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/include -I/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/opt/torque/lib -Wl,-rpath -Wl,/opt/torque/lib -Wl,-rpath -Wl,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,--enable-new-dtags -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lmpi FAST_AR_FLAGS = Scq FC_MODULE_OUTPUT_FLAG = -J PETSC_LANGUAGE = CONLY FC_LINKER_FLAGS = -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 LIBNAME = ${INSTALL_LIB_DIR}/libpetsc.${AR_LIB_SUFFIX} SL_LINKER = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc PETSC_BUILD_USING_CMAKE = 1 CC_FLAGS = -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 SOWING_LIB = PETSC_PRECISION = double PETSC_LIB_BASIC = -lpetsc SUPERLU_DIST_LIB = -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lsuperlu_dist FC_FLAGS = -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 BLASLAPACK_LIB = -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -lfblas PETSC_MAT_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PCC = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc SL_LINKER_LIBS = ${PETSC_EXTERNAL_LIB_BASIC} HDF5_INCLUDE = -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include MPI_LIB = PETSC_SNES_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_EXTERNAL_LIB_BASIC = -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lsuperlu_dist -lflapack -lfblas -lnetcdf -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lparmetis -lmetis -lz -lX11 -lpthread -lm -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -lgfortran -lm -lquadmath -lmpi_cxx -lstdc++ -lm -ldl -lmpi -lgcc_s -ldl HDF5_LIB = -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 SL_LINKER_FLAGS = ${PCC_LINKER_FLAGS} PARMETIS_LIB = -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis SUPERLU_DIST_INCLUDE = -I/home/thl/petsc/fast_double/include CC_SUFFIX = o PETSC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} CONFIGURE_OPTIONS = -start-in-debugger --download-metis --download-parmetis --download-superlu_dist --with-fortran-datatypes --with-precison=double --with-debugging=0 --with-cc=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc --with-fc=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 --with-cxx=/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx --with-shared-libraries=0 -fPIC --download-fblaslapack=1 --with-fortran --with-fortran-interfaces --with-shared-libraries=1 --with-cmake=/share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake --with-netcdf-dir= --download-zlib --with-hdf5-dir=/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/ --with-netcdf-dir=/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/ COPTFLAGS=-O3 FOPTFLAGS=-O3 SHLIBS = libpetsc METIS_INCLUDE = -I/home/thl/petsc/fast_double/include PETSC_CHARACTERISTIC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PTHREAD_LIB = -lpthread PETSC_SCALAR = real PETSC_FC_INCLUDES = -I/home/thl/petsc/include -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include CPP_FLAGS = PETSC_WITH_EXTERNAL_LIB = -L/home/thl/petsc/fast_double/lib -Wl,-rpath,/home/thl/petsc/fast_double/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib/gcc/x86_64-unknown-linux-gnu/4.9.3 -Wl,-rpath,/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -L/share/apps/software/rhel6/software/netCDF-Fortran/4.4.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -L/share/apps/software/rhel6/software/matplotlib/1.5.1-foss-2016a-Python-2.7.11/lib -Wl,-rpath,/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -L/share/apps/software/rhel6/software/freetype/2.6.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -L/share/apps/software/rhel6/software/libpng/1.6.21-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -lpetsc -lsuperlu_dist -lflapack -lfblas -lnetcdf -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 -lparmetis -lmetis -lz -lX11 -lpthread -lm -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lm -lgfortran -lm -lquadmath -lmpi_cxx -lstdc++ -lm -Wl,-rpath,/opt/torque/lib -L/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 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-Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -L/share/apps/software/rhel6/software/cURL/7.47.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -L/share/apps/software/rhel6/software/Szip/2.1-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -L/share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -L/share/apps/software/rhel6/software/GMP/6.1.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -L/share/apps/software/rhel6/software/Tk/8.6.4-foss-2016a-no-X11/lib -Wl,-rpath,/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -L/share/apps/software/rhel6/software/SQLite/3.9.2-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -L/share/apps/software/rhel6/software/Tcl/8.6.4-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -L/share/apps/software/rhel6/software/libreadline/6.3-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -L/share/apps/software/rhel6/software/ncurses/6.0-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -L/share/apps/software/rhel6/software/zlib/1.2.8-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -L/share/apps/software/rhel6/software/bzip2/1.0.6-foss-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/ScaLAPACK/2.0.2-gompi-2016a-OpenBLAS-0.2.15-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -L/share/apps/software/rhel6/software/FFTW/3.3.4-gompi-2016a/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -L/share/apps/software/rhel6/software/OpenBLAS/0.2.15-GCC-4.9.3-2.25-LAPACK-3.6.0/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/hwloc/1.11.2-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -L/share/apps/software/rhel6/software/numactl/2.0.11-GCC-4.9.3-2.25/lib -Wl,-rpath,/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -L/share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib64 -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -Wl,-rpath,/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -L/share/apps/software/rhel6/software/GCCcore/4.9.3/lib -ldl -Wl,-rpath,/opt/torque/lib -Wl,-rpath,/share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/lib -lmpi -lgcc_s -ldl PETSC_TAO_LIB_BASIC = -lpetsc PETSC_KSP_LIB_BASIC = -lpetsc FPP_FLAGS = FC_LINKER = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 PETSC_KSP_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} NETCDF_LIB = -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -lnetcdf CXX_FLAGS = -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC PCC_LINKER_FLAGS = -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 PETSC_CONTRIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_CC_INCLUDES = -I/home/thl/petsc/include -I/home/thl/petsc/fast_double/include -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include PCC_LINKER = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc PETSC_SYS_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PCC_FLAGS = -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 PTHREAD_INCLUDE = METIS_LIB = -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis NETCDF_INCLUDE = -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include PETSC_TS_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} FBLASLAPACK_INCLUDE = BLASLAPACK_INCLUDE = PETSC_TS_LIB_BASIC = -lpetsc PETSC_VEC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} CC_LINKER_SUFFIX = FBLASLAPACK_LIB = SL_LINKER_SUFFIX = so PARMETIS_INCLUDE = -I/home/thl/petsc/fast_double/include PETSC_DM_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} DESTDIR = /home/thl/petsc/fast_double FC_MODULE_FLAG = -I X_LIB = -lX11 wPETSC_DIR = /home/thl/petsc X_INCLUDE = ZLIB_INCLUDE = -I/home/thl/petsc/fast_double/include SOWING_INCLUDE = PETSC_TAO_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} MPI_INCLUDE = FC_SUFFIX = o ZLIB_LIB = -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz SHELL = /bin/sh GREP = /bin/grep MV = /bin/mv PYTHON = /share/apps/software/rhel6/software/Python/2.7.11-foss-2016a/bin/python MKDIR = /bin/mkdir -p SEDINPLACE = /bin/sed -i M4 = /usr/bin/m4 SED = /bin/sed DIFF = /usr/bin/diff -w GZIP = /bin/gzip RM = /bin/rm -f CP = /bin/cp CC_LINKER_SLFLAG = -Wl,-rpath, CC = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc RANLIB = /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ranlib DYNAMICLINKER = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc CXX = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx FC = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 CXXCPP = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -E FC_LINKER_SLFLAG = -Wl,-rpath, CPP = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -E AR_LIB_SUFFIX = a LD_SHARED = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc AR = /share/apps/software/rhel6/software/binutils/2.25-GCCcore-4.9.3/bin/ar DIR = /home/thl/petsc PETSC_SCALAR_SIZE = 64 PETSC_INDEX_SIZE = 32 MAKE_IS_GNUMAKE = 1 MAKE_NP = 10 NPMAX = 12 OMAKE_PRINTDIR = /usr/bin/gmake --print-directory MAKE = /usr/bin/gmake MAKE_PAR_OUT_FLG = OMAKE = /usr/bin/gmake --no-print-directory GIT = git HG = hg SL_LINKER_FUNCTION = -shared -Wl,-soname,$(call SONAME_FUNCTION,$(notdir $(1)),$(2)) SONAME_FUNCTION = $(1).so.$(2) BUILDSHAREDLIB = yes GDB = /usr/bin/gdb DSYMUTIL = true MPIEXEC = /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpiexec CMAKE = /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/cmake CTEST = /share/apps/software/rhel6/software/CMake/3.4.3-foss-2016a/bin/ctest DOCTEXT = /home/thl/petsc/fast_double/bin/doctext BIB2HTML = /home/thl/petsc/fast_double/bin/bib2html BFORT = /home/thl/petsc/fast_double/bin/bfort MAPNAMES = /home/thl/petsc/fast_double/bin/mapnames TEST_RUNS = C C_Info C_NotSingle C_X Fortran Fortran_NotSingle F90_NotSingle Fortran_NoComplex_NotSingle C_NoComplex_NotSingle METIS PARMETIS HDF5 SUPERLU_DIST Cxx F90 F90_NoComplex F2003 Fortran_NoComplex C_NoComplex DOUBLEINT32 Fortran_DOUBLEINT32 **** fast_double/lib/petsc/conf/petscrules **** shared_install: -@echo "Now to check if the libraries are working do:" -@echo "make PETSC_DIR=${PETSC_DIR} PETSC_ARCH=${PETSC_ARCH} test" -@echo "=========================================" remoteclean: remote: libc: ${LIBNAME}(${OBJSC}) libcxx: ${LIBNAME}(${OBJSCXX}) libcu: ${LIBNAME}(${OBJSCU}) libf: ${OBJSF} -${AR} ${AR_FLAGS} ${LIBNAME} ${OBJSF} shared_arch: shared_linux .F.a: ${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} ${FCPPFLAGS} $< -${AR} ${AR_FLAGS} ${LIBNAME} $*.o -${RM} $*.o .f.o .f90.o .f95.o: ${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} -o $@ $< .f.a: ${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} $< -${AR} ${AR_FLAGS} ${LIBNAME} $*.o -${RM} $*.o .F.o .F90.o .F95.o: ${PETSC_MAKE_STOP_ON_ERROR}${FC} -c ${FC_FLAGS} ${FFLAGS} ${FCPPFLAGS} -o $@ $< mpi4py-build: mpi4py-install: petsc4py-build: petsc4py-install: **** fast_double/include/petscconf.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #ifndef IS_COLORING_MAX #define IS_COLORING_MAX 65535 #endif #ifndef STDC_HEADERS #define STDC_HEADERS 1 #endif #ifndef MPIU_COLORING_VALUE #define MPIU_COLORING_VALUE MPI_UNSIGNED_SHORT #endif #ifndef PETSC_HAVE_CXX #define PETSC_HAVE_CXX 1 #endif #ifndef PETSC_UINTPTR_T #define PETSC_UINTPTR_T uintptr_t #endif #ifndef PETSC_HAVE_PTHREAD #define PETSC_HAVE_PTHREAD 1 #endif #ifndef PETSC_HAVE_ZLIB #define PETSC_HAVE_ZLIB 1 #endif #ifndef PETSC_DEPRECATED #define PETSC_DEPRECATED(why) __attribute((deprecated)) #endif #ifndef PETSC_REPLACE_DIR_SEPARATOR #define PETSC_REPLACE_DIR_SEPARATOR '\\' #endif #ifndef PETSC_HAVE_HDF5 #define PETSC_HAVE_HDF5 1 #endif #ifndef PETSC_HAVE_SO_REUSEADDR #define PETSC_HAVE_SO_REUSEADDR 1 #endif #ifndef PETSC_HAVE_MPI #define PETSC_HAVE_MPI 1 #endif #ifndef PETSC_PREFETCH_HINT_T2 #define PETSC_PREFETCH_HINT_T2 _MM_HINT_T2 #endif #ifndef PETSC_PREFETCH_HINT_T0 #define PETSC_PREFETCH_HINT_T0 _MM_HINT_T0 #endif #ifndef PETSC_PREFETCH_HINT_T1 #define PETSC_PREFETCH_HINT_T1 _MM_HINT_T1 #endif #ifndef PETSC_HAVE_FORTRAN #define PETSC_HAVE_FORTRAN 1 #endif #ifndef PETSC_DIR #define PETSC_DIR "/home/thl/petsc" #endif #ifndef PETSC_HAVE_X #define PETSC_HAVE_X 1 #endif #ifndef PETSC_LIB_DIR #define PETSC_LIB_DIR "/home/thl/petsc/fast_double/lib" #endif #ifndef PETSC_HAVE_SUPERLU_DIST #define PETSC_HAVE_SUPERLU_DIST 1 #endif #ifndef PETSC_HAVE_PARMETIS #define PETSC_HAVE_PARMETIS 1 #endif #ifndef PETSC_USE_SOCKET_VIEWER #define PETSC_USE_SOCKET_VIEWER 1 #endif #ifndef PETSC_USE_ISATTY #define PETSC_USE_ISATTY 1 #endif #ifndef PETSC_HAVE_SOWING #define PETSC_HAVE_SOWING 1 #endif #ifndef PETSC_SLSUFFIX #define PETSC_SLSUFFIX "so" #endif #ifndef PETSC_FUNCTION_NAME_CXX #define PETSC_FUNCTION_NAME_CXX __func__ #endif #ifndef PETSC_HAVE_FBLASLAPACK #define PETSC_HAVE_FBLASLAPACK 1 #endif #ifndef PETSC_HAVE_ATOLL #define PETSC_HAVE_ATOLL 1 #endif #ifndef PETSC_HAVE_ATTRIBUTEALIGNED #define PETSC_HAVE_ATTRIBUTEALIGNED 1 #endif #ifndef PETSC_HAVE_DOUBLE_ALIGN_MALLOC #define PETSC_HAVE_DOUBLE_ALIGN_MALLOC 1 #endif #ifndef PETSC_UNUSED #define PETSC_UNUSED __attribute((unused)) #endif #ifndef PETSC_ATTRIBUTEALIGNED #define PETSC_ATTRIBUTEALIGNED(size) __attribute((aligned (size))) #endif #ifndef PETSC_FUNCTION_NAME_C #define PETSC_FUNCTION_NAME_C __func__ #endif #ifndef PETSC_USE_SINGLE_LIBRARY #define PETSC_USE_SINGLE_LIBRARY 1 #endif #ifndef PETSC_HAVE_BUILTIN_EXPECT #define PETSC_HAVE_BUILTIN_EXPECT 1 #endif #ifndef PETSC_HAVE_NETCDF #define PETSC_HAVE_NETCDF 1 #endif #ifndef PETSC_HAVE_METIS #define PETSC_HAVE_METIS 1 #endif #ifndef PETSC_DIR_SEPARATOR #define PETSC_DIR_SEPARATOR '/' #endif #ifndef PETSC_PATH_SEPARATOR #define PETSC_PATH_SEPARATOR ':' #endif #ifndef PETSC_HAVE_XMMINTRIN_H #define PETSC_HAVE_XMMINTRIN_H 1 #endif #ifndef PETSC_PREFETCH_HINT_NTA #define PETSC_PREFETCH_HINT_NTA _MM_HINT_NTA #endif #ifndef PETSC_Prefetch #define PETSC_Prefetch(a,b,c) _mm_prefetch((const char*)(a),(c)) #endif #ifndef PETSC_HAVE_BLASLAPACK #define PETSC_HAVE_BLASLAPACK 1 #endif #ifndef PETSC_HAVE_GZIP #define PETSC_HAVE_GZIP 1 #endif #ifndef PETSC_HAVE_STRING_H #define PETSC_HAVE_STRING_H 1 #endif #ifndef PETSC_HAVE_SYS_TYPES_H #define PETSC_HAVE_SYS_TYPES_H 1 #endif #ifndef PETSC_HAVE_ENDIAN_H #define PETSC_HAVE_ENDIAN_H 1 #endif #ifndef PETSC_HAVE_SYS_PROCFS_H #define PETSC_HAVE_SYS_PROCFS_H 1 #endif #ifndef PETSC_HAVE_DLFCN_H #define PETSC_HAVE_DLFCN_H 1 #endif #ifndef PETSC_HAVE_SCHED_H #define PETSC_HAVE_SCHED_H 1 #endif #ifndef PETSC_HAVE_STDINT_H #define PETSC_HAVE_STDINT_H 1 #endif #ifndef PETSC_HAVE_LINUX_KERNEL_H #define PETSC_HAVE_LINUX_KERNEL_H 1 #endif #ifndef PETSC_HAVE_TIME_H #define PETSC_HAVE_TIME_H 1 #endif #ifndef PETSC_HAVE_MATH_H #define PETSC_HAVE_MATH_H 1 #endif #ifndef PETSC_HAVE_INTTYPES_H #define PETSC_HAVE_INTTYPES_H 1 #endif #ifndef PETSC_TIME_WITH_SYS_TIME #define PETSC_TIME_WITH_SYS_TIME 1 #endif #ifndef PETSC_HAVE_SYS_PARAM_H #define PETSC_HAVE_SYS_PARAM_H 1 #endif #ifndef PETSC_HAVE_PTHREAD_H #define PETSC_HAVE_PTHREAD_H 1 #endif #ifndef PETSC_HAVE_UNISTD_H #define PETSC_HAVE_UNISTD_H 1 #endif #ifndef PETSC_HAVE_STDLIB_H #define PETSC_HAVE_STDLIB_H 1 #endif #ifndef PETSC_HAVE_SYS_WAIT_H #define PETSC_HAVE_SYS_WAIT_H 1 #endif #ifndef PETSC_HAVE_SETJMP_H #define PETSC_HAVE_SETJMP_H 1 #endif #ifndef PETSC_HAVE_LIMITS_H #define PETSC_HAVE_LIMITS_H 1 #endif #ifndef PETSC_HAVE_SYS_UTSNAME_H #define PETSC_HAVE_SYS_UTSNAME_H 1 #endif #ifndef PETSC_HAVE_NETINET_IN_H #define PETSC_HAVE_NETINET_IN_H 1 #endif #ifndef PETSC_HAVE_SYS_SOCKET_H #define PETSC_HAVE_SYS_SOCKET_H 1 #endif #ifndef PETSC_HAVE_FLOAT_H #define PETSC_HAVE_FLOAT_H 1 #endif #ifndef PETSC_HAVE_SEARCH_H #define PETSC_HAVE_SEARCH_H 1 #endif #ifndef PETSC_HAVE_SYS_RESOURCE_H #define PETSC_HAVE_SYS_RESOURCE_H 1 #endif #ifndef PETSC_HAVE_SYS_TIMES_H #define PETSC_HAVE_SYS_TIMES_H 1 #endif #ifndef PETSC_HAVE_NETDB_H #define PETSC_HAVE_NETDB_H 1 #endif #ifndef PETSC_HAVE_MALLOC_H #define PETSC_HAVE_MALLOC_H 1 #endif #ifndef PETSC_HAVE_PWD_H #define PETSC_HAVE_PWD_H 1 #endif #ifndef PETSC_HAVE_FCNTL_H #define PETSC_HAVE_FCNTL_H 1 #endif #ifndef PETSC_HAVE_STRINGS_H #define PETSC_HAVE_STRINGS_H 1 #endif #ifndef PETSC_HAVE_SYS_SYSINFO_H #define PETSC_HAVE_SYS_SYSINFO_H 1 #endif #ifndef PETSC_HAVE_SYS_TIME_H #define PETSC_HAVE_SYS_TIME_H 1 #endif #ifndef PETSC_USING_F90 #define PETSC_USING_F90 1 #endif #ifndef PETSC_USING_F2003 #define PETSC_USING_F2003 1 #endif #ifndef PETSC_HAVE_RTLD_NOW #define PETSC_HAVE_RTLD_NOW 1 #endif #ifndef PETSC_HAVE_RTLD_LOCAL #define PETSC_HAVE_RTLD_LOCAL 1 #endif #ifndef PETSC_HAVE_RTLD_LAZY #define PETSC_HAVE_RTLD_LAZY 1 #endif #ifndef PETSC_C_STATIC_INLINE #define PETSC_C_STATIC_INLINE static inline #endif #ifndef PETSC_USING_F90FREEFORM #define PETSC_USING_F90FREEFORM 1 #endif #ifndef PETSC_HAVE_FORTRAN_UNDERSCORE #define PETSC_HAVE_FORTRAN_UNDERSCORE 1 #endif #ifndef PETSC_HAVE_CXX_NAMESPACE #define PETSC_HAVE_CXX_NAMESPACE 1 #endif #ifndef PETSC_HAVE_RTLD_GLOBAL #define PETSC_HAVE_RTLD_GLOBAL 1 #endif #ifndef PETSC_C_RESTRICT #define PETSC_C_RESTRICT __restrict #endif #ifndef PETSC_CXX_RESTRICT #define PETSC_CXX_RESTRICT __restrict #endif #ifndef PETSC_CXX_STATIC_INLINE #define PETSC_CXX_STATIC_INLINE static inline #endif #ifndef PETSC_HAVE_LIBZ #define PETSC_HAVE_LIBZ 1 #endif #ifndef PETSC_HAVE_LIBDL #define PETSC_HAVE_LIBDL 1 #endif #ifndef PETSC_HAVE_LIBGFORTRAN #define PETSC_HAVE_LIBGFORTRAN 1 #endif #ifndef PETSC_HAVE_LIBMETIS #define PETSC_HAVE_LIBMETIS 1 #endif #ifndef PETSC_HAVE_LIBHDF5HL_FORTRAN #define PETSC_HAVE_LIBHDF5HL_FORTRAN 1 #endif #ifndef PETSC_HAVE_LIBMPI_USEMPIF08 #define PETSC_HAVE_LIBMPI_USEMPIF08 1 #endif #ifndef PETSC_HAVE_LIBM #define PETSC_HAVE_LIBM 1 #endif #ifndef PETSC_HAVE_LIBMPI_MPIFH #define PETSC_HAVE_LIBMPI_MPIFH 1 #endif #ifndef PETSC_HAVE_LIBPTHREAD #define PETSC_HAVE_LIBPTHREAD 1 #endif #ifndef PETSC_HAVE_LIBSUPERLU_DIST #define PETSC_HAVE_LIBSUPERLU_DIST 1 #endif #ifndef PETSC_HAVE_LIBHDF5 #define PETSC_HAVE_LIBHDF5 1 #endif #ifndef PETSC_HAVE_LIBPARMETIS #define PETSC_HAVE_LIBPARMETIS 1 #endif #ifndef PETSC_HAVE_LIBMPI_USEMPI_IGNORE_TKR #define PETSC_HAVE_LIBMPI_USEMPI_IGNORE_TKR 1 #endif #ifndef PETSC_HAVE_LIBFBLAS #define PETSC_HAVE_LIBFBLAS 1 #endif #ifndef PETSC_HAVE_LIBNETCDF #define PETSC_HAVE_LIBNETCDF 1 #endif #ifndef PETSC_HAVE_FENV_H #define PETSC_HAVE_FENV_H 1 #endif #ifndef PETSC_HAVE_LOG2 #define PETSC_HAVE_LOG2 1 #endif #ifndef PETSC_HAVE_LIBHDF5_HL #define PETSC_HAVE_LIBHDF5_HL 1 #endif #ifndef PETSC_HAVE_LIBRT #define PETSC_HAVE_LIBRT 1 #endif #ifndef PETSC_HAVE_LIBFLAPACK #define PETSC_HAVE_LIBFLAPACK 1 #endif #ifndef PETSC_HAVE_ERF #define PETSC_HAVE_ERF 1 #endif #ifndef PETSC_HAVE_LIBX11 #define PETSC_HAVE_LIBX11 1 #endif #ifndef PETSC_HAVE_LIBQUADMATH #define PETSC_HAVE_LIBQUADMATH 1 #endif #ifndef PETSC_HAVE_LIBHDF5_FORTRAN #define PETSC_HAVE_LIBHDF5_FORTRAN 1 #endif #ifndef PETSC_HAVE_TGAMMA #define PETSC_HAVE_TGAMMA 1 #endif #ifndef PETSC_ARCH #define PETSC_ARCH "fast_double" #endif #ifndef PETSC_USE_SCALAR_REAL #define PETSC_USE_SCALAR_REAL 1 #endif #ifndef PETSC_HAVE_ISINF #define PETSC_HAVE_ISINF 1 #endif #ifndef PETSC_HAVE_ISNAN #define PETSC_HAVE_ISNAN 1 #endif #ifndef PETSC_HAVE_ISNORMAL #define PETSC_HAVE_ISNORMAL 1 #endif #ifndef PETSC_USE_REAL_DOUBLE #define PETSC_USE_REAL_DOUBLE 1 #endif #ifndef PETSC_SIZEOF_MPI_COMM #define PETSC_SIZEOF_MPI_COMM 8 #endif #ifndef PETSC_BITS_PER_BYTE #define PETSC_BITS_PER_BYTE 8 #endif #ifndef PETSC_SIZEOF_MPI_FINT #define PETSC_SIZEOF_MPI_FINT 4 #endif #ifndef PETSC_USE_VISIBILITY_C #define PETSC_USE_VISIBILITY_C 1 #endif #ifndef PETSC_SIZEOF_VOID_P #define PETSC_SIZEOF_VOID_P 8 #endif #ifndef PETSC_RETSIGTYPE #define PETSC_RETSIGTYPE void #endif #ifndef PETSC_HAVE_CXX_COMPLEX #define PETSC_HAVE_CXX_COMPLEX 1 #endif #ifndef PETSC_SIZEOF_LONG #define PETSC_SIZEOF_LONG 8 #endif #ifndef PETSC_USE_FORTRANKIND #define PETSC_USE_FORTRANKIND 1 #endif #ifndef PETSC_USE_VISIBILITY_CXX #define PETSC_USE_VISIBILITY_CXX 1 #endif #ifndef PETSC_SIZEOF_SIZE_T #define PETSC_SIZEOF_SIZE_T 8 #endif #ifndef PETSC_HAVE_SIGINFO_T #define PETSC_HAVE_SIGINFO_T 1 #endif #ifndef PETSC_SIZEOF_CHAR #define PETSC_SIZEOF_CHAR 1 #endif #ifndef PETSC_SIZEOF_DOUBLE #define PETSC_SIZEOF_DOUBLE 8 #endif #ifndef PETSC_SIZEOF_FLOAT #define PETSC_SIZEOF_FLOAT 4 #endif #ifndef PETSC_HAVE_C99_COMPLEX #define PETSC_HAVE_C99_COMPLEX 1 #endif #ifndef PETSC_SIZEOF_INT #define PETSC_SIZEOF_INT 4 #endif #ifndef PETSC_SIZEOF_LONG_LONG #define PETSC_SIZEOF_LONG_LONG 8 #endif #ifndef PETSC_SIZEOF_SHORT #define PETSC_SIZEOF_SHORT 2 #endif #ifndef PETSC_CLANGUAGE_C #define PETSC_CLANGUAGE_C 1 #endif #ifndef PETSC_USE_ERRORCHECKING #define PETSC_USE_ERRORCHECKING 1 #endif #ifndef PETSC_HAVE_STRCASECMP #define PETSC_HAVE_STRCASECMP 1 #endif #ifndef PETSC_HAVE_GET_NPROCS #define PETSC_HAVE_GET_NPROCS 1 #endif #ifndef PETSC_HAVE_POPEN #define PETSC_HAVE_POPEN 1 #endif #ifndef PETSC_HAVE_SIGSET #define PETSC_HAVE_SIGSET 1 #endif #ifndef PETSC_HAVE_GETWD #define PETSC_HAVE_GETWD 1 #endif #ifndef PETSC_HAVE_VSNPRINTF #define PETSC_HAVE_VSNPRINTF 1 #endif #ifndef PETSC_HAVE_TIMES #define PETSC_HAVE_TIMES 1 #endif #ifndef PETSC_HAVE_DLSYM #define PETSC_HAVE_DLSYM 1 #endif #ifndef PETSC_HAVE_SNPRINTF #define PETSC_HAVE_SNPRINTF 1 #endif #ifndef PETSC_HAVE_GETHOSTBYNAME #define PETSC_HAVE_GETHOSTBYNAME 1 #endif #ifndef PETSC_HAVE_GETCWD #define PETSC_HAVE_GETCWD 1 #endif #ifndef PETSC_HAVE_DLERROR #define PETSC_HAVE_DLERROR 1 #endif #ifndef PETSC_HAVE_FORK #define PETSC_HAVE_FORK 1 #endif #ifndef PETSC_HAVE_RAND #define PETSC_HAVE_RAND 1 #endif #ifndef PETSC_HAVE_GETTIMEOFDAY #define PETSC_HAVE_GETTIMEOFDAY 1 #endif #ifndef PETSC_HAVE_DLCLOSE #define PETSC_HAVE_DLCLOSE 1 #endif #ifndef PETSC_HAVE_UNAME #define PETSC_HAVE_UNAME 1 #endif #ifndef PETSC_HAVE_GETHOSTNAME #define PETSC_HAVE_GETHOSTNAME 1 #endif #ifndef PETSC_HAVE_MKSTEMP #define PETSC_HAVE_MKSTEMP 1 #endif #ifndef PETSC_HAVE_SIGACTION #define PETSC_HAVE_SIGACTION 1 #endif #ifndef PETSC_HAVE_DRAND48 #define PETSC_HAVE_DRAND48 1 #endif #ifndef PETSC_HAVE_MEMALIGN #define PETSC_HAVE_MEMALIGN 1 #endif #ifndef PETSC_HAVE_VA_COPY #define PETSC_HAVE_VA_COPY 1 #endif #ifndef PETSC_HAVE_CLOCK #define PETSC_HAVE_CLOCK 1 #endif #ifndef PETSC_HAVE_ACCESS #define PETSC_HAVE_ACCESS 1 #endif #ifndef PETSC_HAVE_SIGNAL #define PETSC_HAVE_SIGNAL 1 #endif #ifndef PETSC_HAVE_USLEEP #define PETSC_HAVE_USLEEP 1 #endif #ifndef PETSC_HAVE_GETRUSAGE #define PETSC_HAVE_GETRUSAGE 1 #endif #ifndef PETSC_HAVE_VFPRINTF #define PETSC_HAVE_VFPRINTF 1 #endif #ifndef PETSC_HAVE_NANOSLEEP #define PETSC_HAVE_NANOSLEEP 1 #endif #ifndef PETSC_HAVE_GETDOMAINNAME #define PETSC_HAVE_GETDOMAINNAME 1 #endif #ifndef PETSC_HAVE_TIME #define PETSC_HAVE_TIME 1 #endif #ifndef PETSC_HAVE_LSEEK #define PETSC_HAVE_LSEEK 1 #endif #ifndef PETSC_HAVE_SOCKET #define PETSC_HAVE_SOCKET 1 #endif #ifndef PETSC_HAVE_SYSINFO #define PETSC_HAVE_SYSINFO 1 #endif #ifndef PETSC_HAVE_READLINK #define PETSC_HAVE_READLINK 1 #endif #ifndef PETSC_HAVE_REALPATH #define PETSC_HAVE_REALPATH 1 #endif #ifndef PETSC_HAVE_DLOPEN #define PETSC_HAVE_DLOPEN 1 #endif #ifndef PETSC_HAVE_MEMMOVE #define PETSC_HAVE_MEMMOVE 1 #endif #ifndef PETSC_HAVE__GFORTRAN_IARGC #define PETSC_HAVE__GFORTRAN_IARGC 1 #endif #ifndef PETSC_SIGNAL_CAST #define PETSC_SIGNAL_CAST #endif #ifndef PETSC_HAVE_SLEEP #define PETSC_HAVE_SLEEP 1 #endif #ifndef PETSC_HAVE_VPRINTF #define PETSC_HAVE_VPRINTF 1 #endif #ifndef PETSC_HAVE_BZERO #define PETSC_HAVE_BZERO 1 #endif #ifndef PETSC_HAVE_GETPAGESIZE #define PETSC_HAVE_GETPAGESIZE 1 #endif #ifndef PETSC_WRITE_MEMORY_BARRIER #define PETSC_WRITE_MEMORY_BARRIER() asm volatile("sfence":::"memory") #endif #ifndef PETSC_MEMORY_BARRIER #define PETSC_MEMORY_BARRIER() asm volatile("mfence":::"memory") #endif #ifndef PETSC_READ_MEMORY_BARRIER #define PETSC_READ_MEMORY_BARRIER() asm volatile("lfence":::"memory") #endif #ifndef PETSC_CPU_RELAX #define PETSC_CPU_RELAX() asm volatile("rep; nop" ::: "memory") #endif #ifndef PETSC_HAVE_DYNAMIC_LIBRARIES #define PETSC_HAVE_DYNAMIC_LIBRARIES 1 #endif #ifndef PETSC_HAVE_SHARED_LIBRARIES #define PETSC_HAVE_SHARED_LIBRARIES 1 #endif #ifndef PETSC_USE_SHARED_LIBRARIES #define PETSC_USE_SHARED_LIBRARIES 1 #endif #ifndef PETSC_USE_GDB_DEBUGGER #define PETSC_USE_GDB_DEBUGGER 1 #endif #ifndef PETSC_VERSION_DATE_GIT #define PETSC_VERSION_DATE_GIT "2017-06-12 10:08:46 -0500" #endif #ifndef PETSC_VERSION_BRANCH_GIT #define PETSC_VERSION_BRANCH_GIT "master" #endif #ifndef PETSC_VERSION_GIT #define PETSC_VERSION_GIT "v3.7.6-4108-g8c405a3" #endif #ifndef PETSC_BLASLAPACK_UNDERSCORE #define PETSC_BLASLAPACK_UNDERSCORE 1 #endif #ifndef PETSC_HAVE_MPI_F90MODULE #define PETSC_HAVE_MPI_F90MODULE 1 #endif #ifndef PETSC_HAVE_MPI_IALLREDUCE #define PETSC_HAVE_MPI_IALLREDUCE 1 #endif #ifndef PETSC_HAVE_OMPI_MINOR_VERSION #define PETSC_HAVE_OMPI_MINOR_VERSION 10 #endif #ifndef PETSC_HAVE_MPI_REDUCE_SCATTER_BLOCK #define PETSC_HAVE_MPI_REDUCE_SCATTER_BLOCK 1 #endif #ifndef PETSC_HAVE_MPI_IN_PLACE #define PETSC_HAVE_MPI_IN_PLACE 1 #endif #ifndef PETSC_HAVE_MPI_COMM_C2F #define PETSC_HAVE_MPI_COMM_C2F 1 #endif #ifndef PETSC_HAVE_MPI_COMBINER_CONTIGUOUS #define PETSC_HAVE_MPI_COMBINER_CONTIGUOUS 1 #endif #ifndef PETSC_HAVE_MPI_INT64_T #define PETSC_HAVE_MPI_INT64_T 1 #endif #ifndef PETSC_HAVE_MPI_TYPE_GET_EXTENT #define PETSC_HAVE_MPI_TYPE_GET_EXTENT 1 #endif #ifndef PETSC_HAVE_MPI_WIN_CREATE #define PETSC_HAVE_MPI_WIN_CREATE 1 #endif #ifndef PETSC_HAVE_MPI_TYPE_DUP #define PETSC_HAVE_MPI_TYPE_DUP 1 #endif #ifndef PETSC_HAVE_MPI_INIT_THREAD #define PETSC_HAVE_MPI_INIT_THREAD 1 #endif #ifndef PETSC_HAVE_MPI_COMBINER_NAMED #define PETSC_HAVE_MPI_COMBINER_NAMED 1 #endif #ifndef PETSC_HAVE_MPI_LONG_DOUBLE #define PETSC_HAVE_MPI_LONG_DOUBLE 1 #endif #ifndef PETSC_HAVE_MPI_COMM_F2C #define PETSC_HAVE_MPI_COMM_F2C 1 #endif #ifndef PETSC_HAVE_MPI_TYPE_GET_ENVELOPE #define PETSC_HAVE_MPI_TYPE_GET_ENVELOPE 1 #endif #ifndef PETSC_HAVE_OMPI_MAJOR_VERSION #define PETSC_HAVE_OMPI_MAJOR_VERSION 1 #endif #ifndef PETSC_HAVE_MPI_REDUCE_SCATTER #define PETSC_HAVE_MPI_REDUCE_SCATTER 1 #endif #ifndef PETSC_HAVE_MPI_COMBINER_DUP #define PETSC_HAVE_MPI_COMBINER_DUP 1 #endif #ifndef PETSC_HAVE_MPIIO #define PETSC_HAVE_MPIIO 1 #endif #ifndef PETSC_HAVE_MPI_COMM_SPAWN #define PETSC_HAVE_MPI_COMM_SPAWN 1 #endif #ifndef PETSC_HAVE_MPI_FINT #define PETSC_HAVE_MPI_FINT 1 #endif #ifndef PETSC_HAVE_MPI_IBARRIER #define PETSC_HAVE_MPI_IBARRIER 1 #endif #ifndef PETSC_HAVE_MPI_ALLTOALLW #define PETSC_HAVE_MPI_ALLTOALLW 1 #endif #ifndef PETSC_HAVE_OMPI_RELEASE_VERSION #define PETSC_HAVE_OMPI_RELEASE_VERSION 2 #endif #ifndef PETSC_HAVE_MPI_REDUCE_LOCAL #define PETSC_HAVE_MPI_REDUCE_LOCAL 1 #endif #ifndef PETSC_HAVE_MPI_REPLACE #define PETSC_HAVE_MPI_REPLACE 1 #endif #ifndef PETSC_HAVE_MPI_EXSCAN #define PETSC_HAVE_MPI_EXSCAN 1 #endif #ifndef PETSC_HAVE_MPI_C_DOUBLE_COMPLEX #define PETSC_HAVE_MPI_C_DOUBLE_COMPLEX 1 #endif #ifndef PETSC_HAVE_MPI_FINALIZED #define PETSC_HAVE_MPI_FINALIZED 1 #endif #ifndef PETSC_USE_INFO #define PETSC_USE_INFO 1 #endif #ifndef PETSC_Alignx #define PETSC_Alignx(a,b) #endif #ifndef PETSC_USE_BACKWARD_LOOP #define PETSC_USE_BACKWARD_LOOP 1 #endif #ifndef PETSC_USE_MALLOC_COALESCED #define PETSC_USE_MALLOC_COALESCED 1 #endif #ifndef PETSC_USE_LOG #define PETSC_USE_LOG 1 #endif #ifndef PETSC_IS_COLOR_VALUE_TYPE_F #define PETSC_IS_COLOR_VALUE_TYPE_F integer2 #endif #ifndef PETSC_IS_COLOR_VALUE_TYPE #define PETSC_IS_COLOR_VALUE_TYPE short #endif #ifndef PETSC_USE_CTABLE #define PETSC_USE_CTABLE 1 #endif #ifndef PETSC_MEMALIGN #define PETSC_MEMALIGN 16 #endif #ifndef PETSC_LEVEL1_DCACHE_LINESIZE #define PETSC_LEVEL1_DCACHE_LINESIZE 64 #endif #ifndef PETSC_LEVEL1_DCACHE_SIZE #define PETSC_LEVEL1_DCACHE_SIZE 32768 #endif #ifndef PETSC_LEVEL1_DCACHE_ASSOC #define PETSC_LEVEL1_DCACHE_ASSOC 8 #endif #ifndef PETSC__GNU_SOURCE #define PETSC__GNU_SOURCE 1 #endif #ifndef PETSC__BSD_SOURCE #define PETSC__BSD_SOURCE 1 #endif #ifndef PETSC__DEFAULT_SOURCE #define PETSC__DEFAULT_SOURCE 1 #endif #ifndef PETSC_HAVE_FORTRAN_GET_COMMAND_ARGUMENT #define PETSC_HAVE_FORTRAN_GET_COMMAND_ARGUMENT 1 #endif #ifndef PETSC_HAVE_GFORTRAN_IARGC #define PETSC_HAVE_GFORTRAN_IARGC 1 #endif #ifndef PETSC_USE_PROC_FOR_SIZE #define PETSC_USE_PROC_FOR_SIZE 1 #endif #ifndef PETSC_HAVE_SCHED_CPU_SET_T #define PETSC_HAVE_SCHED_CPU_SET_T 1 #endif #ifndef PETSC_HAVE_PTHREAD_BARRIER_T #define PETSC_HAVE_PTHREAD_BARRIER_T 1 #endif #ifndef PETSC_HAVE_SYS_SYSCTL_H #define PETSC_HAVE_SYS_SYSCTL_H 1 #endif #endif **** fast_double/include/petscfix.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #if defined(__cplusplus) extern "C" { } #else #endif #endif Configure Actions These are the actions performed by configure on the filesystem ----------------------------------------------------------------- PETSc: File creation : Generated Fortran stubs Build : Set default architecture to fast_double in lib/petsc/conf/petscvariables File creation : Created fast_double/lib/petsc/conf/reconfigure-fast_double.py for automatic reconfiguration METIS: Download : Downloaded METIS into /global/home/thl/petsc/fast_double/externalpackages/git.metis Install : Installed METIS into /home/thl/petsc/fast_double PARMETIS: Download : Downloaded PARMETIS into /global/home/thl/petsc/fast_double/externalpackages/git.parmetis Install : Installed PARMETIS into /home/thl/petsc/fast_double SUPERLU_DIST: Download : Downloaded SUPERLU_DIST into /global/home/thl/petsc/fast_double/externalpackages/git.superlu_dist Install : Installed SUPERLU_DIST into /home/thl/petsc/fast_double Framework: RDict update : Substitutions were stored in RDict with parent None File creation : Created makefile configure header fast_double/lib/petsc/conf/petscvariables File creation : Created makefile configure header fast_double/lib/petsc/conf/petscrules File creation : Created configure header fast_double/include/petscconf.h File creation : Created C specific configure header fast_double/include/petscfix.h Pushing language C Popping language C Pushing language Cxx Popping language Cxx Pushing language FC Popping language FC Compilers: C Compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 C++ Compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicxx -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O -fPIC Fortran Compiler: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpif90 -fPIC -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -O3 Linkers: Shared linker: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 Dynamic linker: /share/apps/software/rhel6/software/OpenMPI/1.10.2-GCC-4.9.3-2.25/bin/mpicc -shared -fPIC -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -O3 make: BLAS/LAPACK: -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lflapack -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lfblas MPI: fblaslapack: cmake: Arch: hdf5: Includes: -I/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/include Library: -Wl,-rpath,/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -L/share/apps/software/rhel6/software/HDF5/1.8.16-foss-2016a/lib -lhdf5hl_fortran -lhdf5_fortran -lhdf5_hl -lhdf5 zlib: Includes: -I/home/thl/petsc/fast_double/include Library: -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lz netcdf: Includes: -I/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/include Library: -Wl,-rpath,/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -L/share/apps/software/rhel6/software/netCDF/4.4.0-foss-2016a/lib64 -lnetcdf metis: Includes: -I/home/thl/petsc/fast_double/include Library: -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lmetis parmetis: Includes: -I/home/thl/petsc/fast_double/include Library: -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lparmetis SuperLU_DIST: Includes: -I/home/thl/petsc/fast_double/include Library: -Wl,-rpath,/home/thl/petsc/fast_double/lib -L/home/thl/petsc/fast_double/lib -lsuperlu_dist X: Library: -lX11 pthread: Library: -lpthread sowing: PETSc: PETSC_ARCH: fast_double PETSC_DIR: /home/thl/petsc Scalar type: real Precision: double Clanguage: C Integer size: 32 shared libraries: enabled Memory alignment: 16 xxx=========================================================================xxx Configure stage complete. Now build PETSc libraries with (gnumake build): make PETSC_DIR=/home/thl/petsc PETSC_ARCH=fast_double all xxx=========================================================================xxx ================================================================================ Finishing Configure Run at Tue Jun 13 12:04:48 2017 ================================================================================