================================================================================ ================================================================================ Starting configure run at Tue, 19 Nov 2019 14:29:02 -0500 Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --with-scalar-type=real --with-x=0 --with-hdf5=0 --with-single-library=1 --with-shared-libraries=0 --with-log=0 --with-mpi=0 --with-clanguage=C++ --with-cxx-dialect=C++11 --CXXFLAGS="-fopenmp -fPIC" --CFLAGS="-fopenmp -fPIC" --with-fortran=0 --FFLAGS="-fopenmp -fPIC" --with-64-bit-indices=0 --with-debugging=0 --with-cc=gcc --with-fc=gfortran --with-cxx=g++ COPTFLAGS= CXXOPTFLAGS= FOPTFLAGS= --download-metis=0 --download-superlu_dist=0 --download-parmetis=0 --with-valgrind-dir=/apps/brown/valgrind/3.13.0_gcc-4.8.5 --download-mumps=1 --with-mumps-serial=1 --with-fortran-kernels=0 --with-blaslapack-lib="-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core " --with-blacs-lib=/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64/libmkl_blacs_intelmpi_lp64.so --with-blacs-include=/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/include --with-scalapack=0 Working directory: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi Machine platform: ('Linux', 'brown-fe01.rcac.purdue.edu', '3.10.0-957.12.2.el7.x86_64', '#1 SMP Tue May 14 21:24:32 UTC 2019', 'x86_64', 'x86_64') Python version: 2.7.5 (default, Apr 9 2019, 14:30:50) [GCC 4.8.5 20150623 (Red Hat 4.8.5-36)] ================================================================================ ================================================================================ TEST configureExternalPackagesDir from config.framework(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/framework.py:830) TESTING: configureExternalPackagesDir from config.framework(config/BuildSystem/config/framework.py:830) ================================================================================ TEST configureDebuggers from config.utilities.debuggers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/debuggers.py:21) TESTING: configureDebuggers from config.utilities.debuggers(config/BuildSystem/config/utilities/debuggers.py:21) Find a default debugger and determine its arguments Checking for program /apps/cent7/xalt/bin/gdb...not found Checking for program /apps/cent7/subversion/1.9.7/bin/gdb...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/gdb...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/gdb...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/gdb...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/gdb...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/gdb...not found Checking for program /apps/cent7/gcc/5.2.0/bin/gdb...not found Checking for program ./gdb...not found Checking for program /home/mpovolot/bin/gdb...not found Checking for program /usr/pbs/bin/gdb...found Defined make macro "GDB" to "/usr/pbs/bin/gdb" Checking for program /apps/cent7/xalt/bin/dbx...not found Checking for program /apps/cent7/subversion/1.9.7/bin/dbx...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/dbx...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/dbx...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/dbx...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/dbx...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/dbx...not found Checking for program /apps/cent7/gcc/5.2.0/bin/dbx...not found Checking for program ./dbx...not found Checking for program /home/mpovolot/bin/dbx...not found Checking for program /usr/pbs/bin/dbx...not found Checking for program /bin/dbx...not found Checking for program /sw/bin/dbx...not found Checking for program /usr/bin/dbx...not found Checking for program /usr/local/bin/dbx...not found Checking for program /apps/cent7/xalt/bin/xdb...not found Checking for program /apps/cent7/subversion/1.9.7/bin/xdb...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/xdb...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/xdb...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/xdb...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/xdb...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/xdb...not found Checking for program /apps/cent7/gcc/5.2.0/bin/xdb...not found Checking for program ./xdb...not found Checking for program /home/mpovolot/bin/xdb...not found Checking for program /usr/pbs/bin/xdb...not found Checking for program /bin/xdb...not found Checking for program /sw/bin/xdb...not found Checking for program /usr/bin/xdb...not found Checking for program /usr/local/bin/xdb...not found Executing: uname -s stdout: Linux Defined make macro "DSYMUTIL" to "true" Defined "USE_GDB_DEBUGGER" to "1" ================================================================================ TEST configureGit from config.sourceControl(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/sourceControl.py:24) TESTING: configureGit from config.sourceControl(config/BuildSystem/config/sourceControl.py:24) Find the Git executable Checking for program /apps/cent7/xalt/bin/git...not found Checking for program /apps/cent7/subversion/1.9.7/bin/git...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/git...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/git...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/git...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/git...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/git...not found Checking for program /apps/cent7/gcc/5.2.0/bin/git...not found Checking for program ./git...not found Checking for program /home/mpovolot/bin/git...not found Checking for program /usr/pbs/bin/git...found Defined make macro "GIT" to "git" Executing: git --version stdout: git version 2.16.4 ================================================================================ TEST configureMercurial from config.sourceControl(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/sourceControl.py:35) TESTING: configureMercurial from config.sourceControl(config/BuildSystem/config/sourceControl.py:35) Find the Mercurial executable Checking for program /apps/cent7/xalt/bin/hg...not found Checking for program /apps/cent7/subversion/1.9.7/bin/hg...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/hg...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/hg...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/hg...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/hg...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/hg...not found Checking for program /apps/cent7/gcc/5.2.0/bin/hg...not found Checking for program ./hg...not found Checking for program /home/mpovolot/bin/hg...not found Checking for program /usr/pbs/bin/hg...found Defined make macro "HG" to "hg" Executing: hg version -q stdout: Mercurial Distributed SCM (version 2.6.2) ================================================================================ TEST configureDirectories from PETSc.options.petscdir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 1 #define PETSC_VERSION_MAJOR 3 #define PETSC_VERSION_MINOR 11 #define PETSC_VERSION_SUBMINOR 3 #define PETSC_VERSION_PATCH 0 #define PETSC_VERSION_DATE "Jun, 26, 2019" #define PETSC_VERSION_GIT "v3.11.3" #define PETSC_VERSION_DATE_GIT "2019-06-26 15:29:32 -0500" #define PETSC_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ #define PETSC_VERSION_ PETSC_VERSION_EQ #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) \ ================================================================================ TEST getDatafilespath from PETSc.options.dataFilesPath(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/petscclone.py:20) TESTING: configureInstallationMethod from PETSc.options.petscclone(config/PETSc/options/petscclone.py:20) This is a tarball installation ================================================================================ TEST setNativeArchitecture from PETSc.options.arch(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/arch.py:25) TESTING: setNativeArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:25) ================================================================================ TEST configureArchitecture from PETSc.options.arch(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/arch.py:37) TESTING: configureArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:37) Checks PETSC_ARCH and sets if not set ================================================================================ TEST setInstallDir from PETSc.options.installDir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Defined make macro "PREFIXDIR" to "/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi" ================================================================================ TEST saveReconfigure from PETSc.options.installDir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/installDir.py:79) TESTING: saveReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:79) ================================================================================ TEST cleanConfDir from PETSc.options.installDir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/installDir.py:72) TESTING: cleanConfDir from PETSc.options.installDir(config/PETSc/options/installDir.py:72) ================================================================================ TEST configureInstallDir from PETSc.options.installDir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/installDir.py:56) TESTING: configureInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:56) Makes installDir subdirectories if it does not exist for both prefix install location and PETSc work install location Changed persistence directory to /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/petsc/conf ================================================================================ TEST restoreReconfigure from PETSc.options.installDir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/installDir.py:92) TESTING: restoreReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:92) ================================================================================ TEST setExternalPackagesDir from PETSc.options.externalpackagesdir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/externalpackagesdir.py:15) TESTING: setExternalPackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:15) ================================================================================ TEST cleanExternalpackagesDir from PETSc.options.externalpackagesdir(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/externalpackagesdir.py:22) TESTING: cleanExternalpackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:22) ================================================================================ TEST printEnvVariables from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1650) TESTING: printEnvVariables from config.setCompilers(config/BuildSystem/config/setCompilers.py:1650) **** printenv **** LMOD_FAMILY_MPI=openmpi CLUSTER_SCRATCH=/scratch/brown/mpovolot XDG_SESSION_TYPE=x11 LMOD_Priority_PATH=/apps/cent7/xalt/bin:-100 GCC_HOME=/apps/cent7/gcc/5.2.0 ESDAUTH=/var/opt/thinlinc/sessions/mpovolot/3/esd_auth PATH2=./:/home/mpovolot/bin/:/usr/pbs/bin/ SHELL=/bin/tcsh XDG_DATA_DIRS=/usr/local/share:/usr/share LMOD_FAMILY_COMPILER=gcc TARG_TITLE_BAR_PAREN= MANPATH=/usr/man:/opt/moab/share/man:/usr/man:/opt/moab/share/man:/opt/thinlinc/share/man PETSC_DIR=/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi MFLAGS= VENDOR=unknown XDG_RUNTIME_DIR=/run/user/226484 PYTHONPATH=/apps/cent7/xalt/site:/apps/cent7/xalt/libexec LMOD_FAMILY_COMPILER_VERSION=5.2.0 __Init_Default_Modules=1 XDG_SESSION_ID=14 DBUS_SESSION_BUS_ADDRESS=unix:abstract=/tmp/dbus-0dzrEMWifF,guid=46653c2de263d2b508b004335dc48021 TOWN=Springfield DESKTOP_SESSION=xfce CXX=g++ HOSTNAME=brown-fe01.rcac.purdue.edu MOABHOMEDIR=/opt/moab _ModuleTable002_=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 PETSC_ARCH=linux3.11nompi FC=mpif90 XDG_SESSION_CLASS=user MAIL=/var/spool/mail/mpovolot 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:*.arc=38;5;9:*.arj=38;5;9:*.taz=38;5;9:*.lha=38;5;9:*.lz4=38;5;9:*.lzh=38;5;9:*.lzma=38;5;9:*.tlz=38;5;9:*.txz=38;5;9:*.tzo=38;5;9:*.t7z=38;5;9:*.zip=38;5;9:*.z=38;5;9:*.Z=38;5;9:*.dz=38;5;9:*.gz=38;5;9:*.lrz=38;5;9:*.lz=38;5;9:*.lzo=38;5;9:*.xz=38;5;9:*.bz2=38;5;9:*.bz=38;5;9:*.tbz=38;5;9:*.tbz2=38;5;9:*.tz=38;5;9:*.deb=38;5;9:*.rpm=38;5;9:*.jar=38;5;9:*.war=38;5;9:*.ear=38;5;9:*.sar=38;5;9:*.rar=38;5;9:*.alz=38;5;9:*.ace=38;5;9:*.zoo=38;5;9:*.cpio=38;5;9:*.7z=38;5;9:*.rz=38;5;9:*.cab=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:*.webm=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: SSH_ASKPASS=/usr/libexec/openssh/gnome-ssh-askpass GROUP=ece TVDSVRLAUNCHCMD=ssh LESSOPEN=||/usr/bin/lesspipe.sh %s LMOD_FULL_SETTARG_SUPPORT=no CVS_RSH=ssh USER=mpovolot HOME=/home/mpovolot VALGRIND_INCLUDE=-I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include TVDIR=/apps/cent7/totalview/toolworks/totalview.2018.2.6/linux-x86-64 XALT_TRANSMISSION_STYLE=file SESSION_MANAGER=local/unix:@/tmp/.ICE-unix/23627,unix/unix:/tmp/.ICE-unix/23627 SHLVL=2 DISPLAY=:3.0 PCSCTUN_COOKIE=/var/opt/thinlinc/sessions/mpovolot/3/pcsctun-cookie LMOD_ADMIN_FILE=/opt/lmod/admin.list WINDOWID=41943043 OMPI_MCA_btl_openib_warn_nonexistent_if=0 EDITOR=vi GPG_AGENT_INFO=/home/mpovolot/.gnupg/S.gpg-agent:23636:1 LMOD_FAMILY_MPI_VERSION=2.1.6 MODULESHOME=/opt/lmod-7.6.8 XALT_ETC_DIR=/apps/cent7/xalt/etc XDG_SESSION_DESKTOP=xfce LMOD_FAMILY_GRACE_VERSION=false _ModuleTable001_=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 LMOD_VERSION=7.6.8 PATH1=/bin:/sw/bin/:/usr/bin/:/usr/local/bin/ XDG_MENU_PREFIX=xfce- PKG_CONFIG_PATH=/apps/brown/valgrind/3.13.0_gcc-4.8.5/lib/pkgconfig FCA_MGR_HOME=/opt/mellanox/fca LMOD_AVAIL_STYLE=grouped:system LINK_LAPACK=-llapack -lblas -lgfortran MODULEPATH=/opt/modulefiles/utilities:/opt/modulefiles/compiler/gcc/5.2.0:/depot/kildisha/apps/brown/modulefiles:/opt/modulefiles/core:/opt/modulefiles/tools PERL5LIB=/opt/moab/lib/perl5:/opt/moab/lib/perl5 MACHTYPE=x86_64 XDG_CONFIG_DIRS=/etc/xdg COLORTERM=truecolor _LMFILES_=/opt/modulefiles/core/xalt.lua:/opt/modulefiles/tools/gcc/5.2.0.lua:/opt/modulefiles/compiler/gcc/5.2.0/openmpi/2.1.6.lua:/depot/kildisha/apps/brown/modulefiles/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6.lua:/opt/modulefiles/core/valgrind/3.13.0.lua:/opt/modulefiles/core/totalview/2018.2.6.lua:/opt/modulefiles/tools/utilities.lua:/opt/modulefiles/utilities/grace.lua:/opt/modulefiles/utilities/subversion.lua OMPI_MCA_btl_openib_warn_default_gid_prefix=0 VALGRIND_HOME=/apps/brown/valgrind/3.13.0_gcc-4.8.5 LMOD_DIR=/opt/lmod-7.6.8/libexec LMOD_FAMILY_GRACE=grace CLIENT_PULSE_SERVER=127.0.0.1:4935 LMOD_PKG=/opt/lmod-7.6.8 LM_LICENSE_FILE=/apps/cent7/totalview/toolworks/totalview.2018.2.6/license.dat QTDIR=/usr/lib64/qt-3.3 LD_LIBRARY_PATH=/apps/cent7/subversion/serf-1.3.9/lib:/apps/cent7/subversion/1.9.7/lib:/apps/cent7/grace/5.1.25_gcc-4.8.5/grace/lib:/apps/brown/valgrind/3.13.0_gcc-4.8.5/lib:/depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/lib:/apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/lib:/usr/pbs/lib64:/apps/cent7/gcc/5.2.0/lib64:/apps/cent7/gcc/5.2.0/lib:/apps/cent7/gcc/5.2.0/gmp-6.1.0/lib:/apps/cent7/gcc/5.2.0/mpc-1.0.3/lib:/apps/cent7/gcc/5.2.0/mpfr-3.1.3/lib:/opt/thinlinc/lib64:/opt/thinlinc/lib LANG=en_US.UTF-8 QTLIB=/usr/lib64/qt-3.3/lib PULSE_COOKIE=/var/opt/thinlinc/sessions/mpovolot/3/pulse-cookie QTINC=/usr/lib64/qt-3.3/include PULSE_RUNTIME_PATH=/var/opt/thinlinc/sessions/mpovolot/3/pulse RCAC_SCRATCH=/scratch/brown/mpovolot F90=gfortran _=./config/configure.py _ModuleTable_Sz_=6 F95=gfortran OSTYPE=linux _ModuleTable005_=YWRPcmRlciJdPTQscHJvcFQ9e30sWyJzdGFja0RlcHRoIl09MCxbInN0YXR1cyJdPSJhY3RpdmUiLFsidXNlck5hbWUiXT0idnRrLzguMC4xX2djYy01LjIuMF9vcGVubXBpLTIuMS42Iix9LHhhbHQ9e1siZm4iXT0iL29wdC9tb2R1bGVmaWxlcy9jb3JlL3hhbHQubHVhIixbImZ1bGxOYW1lIl09InhhbHQiLFsibG9hZE9yZGVyIl09MSxwcm9wVD17bG1vZD17WyJzdGlja3kiXT0xLH0sfSxbInN0YWNrRGVwdGgiXT0wLFsic3RhdHVzIl09ImFjdGl2ZSIsWyJ1c2VyTmFtZSJdPSJ4YWx0Iix9LH0sbXBhdGhBPXsiL29wdC9tb2R1bGVmaWxlcy91dGlsaXRpZXMiLCIvb3B0L21vZHVsZWZpbGVzL2NvbXBpbGVyL2djYy81LjIuMCIsIi9kZXBvdC9raWxkaXNoYS9hcHBzL2Jyb3du USERNAME=mpovolot CC=gcc VTE_VERSION=5202 LMOD_CMD=/opt/lmod-7.6.8/libexec/lmod HOST=brown-fe01.rcac.purdue.edu QT_GRAPHICSSYSTEM_CHECKED=1 F77=gfortran MAKELEVEL=1 _ModuleTable006_=L21vZHVsZWZpbGVzIiwiL29wdC9tb2R1bGVmaWxlcy9jb3JlIiwiL29wdC9tb2R1bGVmaWxlcy90b29scyIsfSxbInN5c3RlbUJhc2VNUEFUSCJdPSIvb3B0L21vZHVsZWZpbGVzL2NvcmU6L29wdC9tb2R1bGVmaWxlcy90b29scyIsfQ== OMPI_MCA_btl_openib_warn_no_device_params_found=0 LMOD_SETTARG_CMD=: VTK_HOME=/depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6 LMOD_SYSTEM_DEFAULT_MODULES=rcac GLADE_PIXMAP_PATH=: XDG_CURRENT_DESKTOP=XFCE HOSTTYPE=x86_64-linux LOGNAME=mpovolot PATH=/apps/cent7/xalt/bin:/apps/cent7/subversion/1.9.7/bin:/apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin:/apps/cent7/totalview/toolworks/totalview.2018.2.6/bin:/apps/brown/valgrind/3.13.0_gcc-4.8.5/bin:/depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin:/apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin:/apps/cent7/gcc/5.2.0/bin:.:/home/mpovolot/bin:/usr/pbs/bin:/bin:/sw/bin:/usr/bin:/usr/local/bin MAKEFLAGS= SSH_AGENT_PID=23634 TERM=xterm-256color VALGRIND_ROOT=/apps/brown/valgrind/3.13.0_gcc-4.8.5 PCSCTUN_SERVER=127.0.0.1:4936 GRACE_HOME=/apps/cent7/grace/5.1.25_gcc-4.8.5/grace TLSESSIONDATA=/var/opt/thinlinc/sessions/mpovolot/3 _ModuleTable003_=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 TOTALVIEW=/apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/totalview GLADE_CATALOG_PATH=: TLPROFILE=xfce GLADE_MODULE_PATH=: SSH_AUTH_SOCK=/tmp/ssh-ZCJyatOiyfA0/agent.23633 VTK_ROOT=/depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6 MPI_HOME=/apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0 PULSE_SERVER=/var/opt/thinlinc/sessions/mpovolot/3/pulse/native 127.0.0.1:4935 XALT_ACTIVE=1 ID=mpovolot XAUTHORITY=/var/opt/thinlinc/sessions/mpovolot/3/Xauthority OLDPWD=/depot/kildisha/apps/brown/nemo5/libs/petsc LOADEDMODULES=xalt:gcc/5.2.0:openmpi/2.1.6:vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6:valgrind/3.13.0:totalview/2018.2.6:utilities:grace:subversion TLPREFIX=/opt/thinlinc PWD=/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi _ModuleTable004_=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 ================================================================================ TEST resetEnvCompilers from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1657) TESTING: resetEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:1657) CC (set to gcc) found in environment variables - ignoring since also set on command line CXX (set to g++) found in environment variables - ignoring since also set on command line FC (set to mpif90) found in environment variables - ignoring since also set on command line =============================================================================== ***** WARNING: F77 (set to gfortran) found in environment variables - ignoring use ./configure F77=$F77 if you really want to use that value ****** =============================================================================== =============================================================================== ***** WARNING: F90 (set to gfortran) found in environment variables - ignoring use ./configure F90=$F90 if you really want to use that value ****** =============================================================================== =============================================================================== ***** WARNING: MAKEFLAGS (set to ) found in environment variables - ignoring use ./configure MAKEFLAGS=$MAKEFLAGS if you really want to use that value ****** =============================================================================== ================================================================================ TEST checkEnvCompilers from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1687) TESTING: checkEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:1687) ================================================================================ TEST checkMPICompilerOverride from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1620) TESTING: checkMPICompilerOverride from config.setCompilers(config/BuildSystem/config/setCompilers.py:1620) 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1641) TESTING: requireMpiLdPath from config.setCompilers(config/BuildSystem/config/setCompilers.py:1641) OpenMPI wrappers require LD_LIBRARY_PATH set ================================================================================ TEST checkVendor from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:444) TESTING: checkVendor from config.setCompilers(config/BuildSystem/config/setCompilers.py:444) Determine the compiler vendor Compiler vendor is "" ================================================================================ TEST checkInitialFlags from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:454) TESTING: checkInitialFlags from config.setCompilers(config/BuildSystem/config/setCompilers.py:454) Initialize the compiler and linker flags Initialized CFLAGS to -fopenmp -fPIC Initialized CFLAGS to -fopenmp -fPIC Initialized LDFLAGS to Initialized CUDAFLAGS to Initialized CUDAFLAGS to Initialized LDFLAGS to Initialized CXXFLAGS to -fopenmp -fPIC Initialized CXX_CXXFLAGS to Initialized LDFLAGS to Initialized FFLAGS to -fopenmp -fPIC Initialized FFLAGS to -fopenmp -fPIC Initialized LDFLAGS to Initialized CPPFLAGS to Initialized CUDAPPFLAGS to -Wno-deprecated-gpu-targets 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:587) TESTING: checkCCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:587) Locate a functional C compiler Checking for program /apps/cent7/xalt/bin/gcc...not found Checking for program /apps/cent7/subversion/1.9.7/bin/gcc...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/gcc...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/gcc...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/gcc...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/gcc...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/gcc...not found Checking for program /apps/cent7/gcc/5.2.0/bin/gcc...found Defined make macro "CC" to "gcc" All intermediate test results are stored in /tmp/petsc-ugU6A3 All intermediate test results are stored in /tmp/petsc-ugU6A3/config.setCompilers Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.setCompilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Testing executable /tmp/petsc-ugU6A3/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest ================================================================================ TEST checkCPreprocessor from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:620) TESTING: checkCPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:620) Locate a functional C preprocessor Checking for program /apps/cent7/xalt/bin/gcc...not found Checking for program /apps/cent7/subversion/1.9.7/bin/gcc...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/gcc...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/gcc...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/gcc...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/gcc...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/gcc...not found Checking for program /apps/cent7/gcc/5.2.0/bin/gcc...found Defined make macro "CPP" to "gcc -E" Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: ================================================================================ TEST checkCUDACompiler from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:661) TESTING: checkCUDACompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:661) Locate a functional CUDA compiler ================================================================================ TEST checkCUDAPreprocessor from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:701) TESTING: checkCUDAPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:701) Locate a functional CUDA preprocessor ================================================================================ TEST checkCxxCompiler from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:814) TESTING: checkCxxCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:814) Locate a functional Cxx compiler Checking for program /apps/cent7/xalt/bin/g++...not found Checking for program /apps/cent7/subversion/1.9.7/bin/g++...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/g++...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/g++...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/g++...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/g++...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/g++...not found Checking for program /apps/cent7/gcc/5.2.0/bin/g++...found Defined make macro "CXX" to "g++" Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.setCompilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Testing executable /tmp/petsc-ugU6A3/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest ================================================================================ TEST checkCxxPreprocessor from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:852) TESTING: checkCxxPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:852) Locate a functional Cxx preprocessor Checking for program /apps/cent7/xalt/bin/g++...not found Checking for program /apps/cent7/subversion/1.9.7/bin/g++...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/g++...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/g++...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/g++...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/g++...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/g++...not found Checking for program /apps/cent7/gcc/5.2.0/bin/g++...found Defined make macro "CXXCPP" to "g++ -E" Executing: g++ -E -I/tmp/petsc-ugU6A3/config.setCompilers /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Preprocess stderr before filtering:: Preprocess stderr after filtering:: ================================================================================ TEST checkFortranCompiler from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:970) TESTING: checkFortranCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:970) Locate a functional Fortran compiler Checking for program /apps/cent7/xalt/bin/gfortran...not found Checking for program /apps/cent7/subversion/1.9.7/bin/gfortran...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/gfortran...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/gfortran...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/gfortran...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/gfortran...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/gfortran...not found Checking for program /apps/cent7/gcc/5.2.0/bin/gfortran...found Defined make macro "FC" to "gfortran" Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: gfortran -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: gfortran -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.setCompilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: gfortran -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Testing executable /tmp/petsc-ugU6A3/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest ================================================================================ TEST checkFortranComments from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:991) TESTING: checkFortranComments from config.setCompilers(config/BuildSystem/config/setCompilers.py:991) Make sure fortran comment "!" works Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main ! comment end Fortran comments can use ! in column 1 ================================================================================ TEST checkLargeFileIO from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1121) TESTING: checkLargeFileIO from config.setCompilers(config/BuildSystem/config/setCompilers.py:1121) ================================================================================ TEST checkArchiver from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1220) TESTING: checkArchiver from config.setCompilers(config/BuildSystem/config/setCompilers.py:1220) Check that the archiver exists and can make a library usable by the compiler Executing: ar -V stdout: GNU ar version 2.27-34.base.el7 Copyright (C) 2016 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 version 2.27-34.base.el7 Copyright (C) 2016 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: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /apps/cent7/xalt/bin/ar...not found Checking for program /apps/cent7/subversion/1.9.7/bin/ar...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/ar...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/ar...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/ar...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/ar...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/ar...not found Checking for program /apps/cent7/gcc/5.2.0/bin/ar...not found Checking for program ./ar...not found Checking for program /home/mpovolot/bin/ar...not found Checking for program /usr/pbs/bin/ar...found Defined make macro "AR" to "/usr/pbs/bin/ar" Checking for program /apps/cent7/xalt/bin/ranlib...not found Checking for program /apps/cent7/subversion/1.9.7/bin/ranlib...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/ranlib...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/ranlib...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/ranlib...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/ranlib...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/ranlib...not found Checking for program /apps/cent7/gcc/5.2.0/bin/ranlib...not found Checking for program ./ranlib...not found Checking for program /home/mpovolot/bin/ranlib...not found Checking for program /usr/pbs/bin/ranlib...found Defined make macro "RANLIB" to "/usr/pbs/bin/ranlib -c" Executing: /usr/pbs/bin/ar cr /tmp/petsc-ugU6A3/config.setCompilers/libconf1.a /tmp/petsc-ugU6A3/config.setCompilers/conf1.o Executing: /usr/pbs/bin/ranlib -c /tmp/petsc-ugU6A3/config.setCompilers/libconf1.a Possible ERROR while running ranlib: stderr: /usr/pbs/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 version 2.27-34.base.el7 Copyright (C) 2016 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 version 2.27-34.base.el7 Copyright (C) 2016 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: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /apps/cent7/xalt/bin/ar...not found Checking for program /apps/cent7/subversion/1.9.7/bin/ar...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/ar...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/ar...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/ar...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/ar...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/ar...not found Checking for program /apps/cent7/gcc/5.2.0/bin/ar...not found Checking for program ./ar...not found Checking for program /home/mpovolot/bin/ar...not found Checking for program /usr/pbs/bin/ar...found Defined make macro "AR" to "/usr/pbs/bin/ar" Checking for program /apps/cent7/xalt/bin/ranlib...not found Checking for program /apps/cent7/subversion/1.9.7/bin/ranlib...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/ranlib...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/ranlib...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/ranlib...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/ranlib...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/ranlib...not found Checking for program /apps/cent7/gcc/5.2.0/bin/ranlib...not found Checking for program ./ranlib...not found Checking for program /home/mpovolot/bin/ranlib...not found Checking for program /usr/pbs/bin/ranlib...found Defined make macro "RANLIB" to "/usr/pbs/bin/ranlib" Executing: /usr/pbs/bin/ar cr /tmp/petsc-ugU6A3/config.setCompilers/libconf1.a /tmp/petsc-ugU6A3/config.setCompilers/conf1.o Executing: /usr/pbs/bin/ranlib /tmp/petsc-ugU6A3/config.setCompilers/libconf1.a Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -L/tmp/petsc-ugU6A3/config.setCompilers -lconf1 Defined make macro "AR_FLAGS" to "cr" Defined make macro "AR_LIB_SUFFIX" to "a" ================================================================================ TEST checkSharedLinker from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1334) TESTING: checkSharedLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1334) Check that the linker can produce shared libraries Checking shared linker /usr/pbs/bin/ar using flags [] Checking for program /usr/pbs/bin/ar...found Defined make macro "LD_SHARED" to "/usr/pbs/bin/ar" Trying C compiler flag Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int (*fprintf_ptr)(FILE*,const char*,...) = fprintf; void foo(void){ fprintf_ptr(stdout,"hello"); return; } void bar(void){foo();} Executing: /usr/pbs/bin/ar cr /tmp/petsc-ugU6A3/config.setCompilers/libconftest.a /tmp/petsc-ugU6A3/config.setCompilers/conftest.o ; /usr/pbs/bin/ranlib /tmp/petsc-ugU6A3/config.setCompilers/libconftest.a Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -L/tmp/petsc-ugU6A3/config.setCompilers -lconftest Using shared linker /usr/pbs/bin/ar with flags [] and library extension a Executing: uname -s stdout: Linux ================================================================================ TEST checkPIC from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1069) TESTING: checkPIC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1069) Determine the PIC option for each compiler Skip checking PIC options on user request ================================================================================ TEST checkSharedLinkerPaths from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1428) TESTING: checkSharedLinkerPaths from config.setCompilers(config/BuildSystem/config/setCompilers.py:1428) Determine the shared linker path options - IRIX: -rpath - Linux, OSF: -Wl,-rpath, - Solaris: -R - FreeBSD: -Wl,-R, Executing: uname -s stdout: Linux Executing: gcc -V Trying C linker flag -Wl,-rpath, Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Valid C linker flag -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi Executing: uname -s stdout: Linux Executing: gcc -V Trying Cxx linker flag -Wl,-rpath, Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Valid Cxx linker flag -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi Executing: uname -s stdout: Linux Executing: gcc -V Trying FC linker flag -Wl,-rpath, Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: gfortran -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o Valid FC linker flag -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi ================================================================================ TEST checkLibC from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1463) TESTING: checkLibC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1463) Test whether we need to explicitly include libc in shared linking - Mac OSX requires an explicit reference to libc for shared linking ================================================================================ TEST checkDynamicLinker from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1512) TESTING: checkDynamicLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1512) Check that the linker can dynamicaly load shared libraries Checking for header: dlfcn.h All intermediate test results are stored in /tmp/petsc-ugU6A3/config.headers Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_DLFCN_H" to "1" Checking for functions [dlopen dlsym dlclose] in library ['dl'] [] All intermediate test results are stored in /tmp/petsc-ugU6A3/config.libraries Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -ldl Defined "HAVE_LIBDL" to "1" Adding ['dl'] to LIBS Executing: uname -s stdout: Linux Checking dynamic linker /usr/pbs/bin/ar using flags [] Checking for program /usr/pbs/bin/ar...found Defined make macro "DYNAMICLINKER" to "/usr/pbs/bin/ar" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {printf("test");return 0;} Executing: /usr/pbs/bin/ar -o /tmp/petsc-ugU6A3/config.setCompilers/libconftest.so /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -ldl Possible ERROR while running linker: stderr: /usr/pbs/bin/ar: creating /tmp/petsc-ugU6A3/config.setCompilers/libconftest.so Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/config.setCompilers/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:11:3: warning: implicit declaration of function ‘printf’ [-Wimplicit-function-declaration] printf("Could not load symbol\n"); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:11:3: warning: incompatible implicit declaration of built-in function ‘printf’ /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:11:3: note: include ‘’ or provide a declaration of ‘printf’ /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:15:3: warning: incompatible implicit declaration of built-in function ‘printf’ printf("Invalid return from foo()\n"); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:15:3: note: include ‘’ or provide a declaration of ‘printf’ /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:19:3: warning: incompatible implicit declaration of built-in function ‘printf’ printf("Could not close library\n"); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.c:19:3: note: include ‘’ or provide a declaration of ‘printf’ Source: #include "confdefs.h" #include "conffix.h" #include int main() { void *handle = dlopen("/tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -ldl Using dynamic linker /usr/pbs/bin/ar with flags [] and library extension so ================================================================================ TEST output from config.setCompilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/setCompilers.py:1564) TESTING: output from config.setCompilers(config/BuildSystem/config/setCompilers.py:1564) Output module data as defines and substitutions Substituting "CC" with "gcc" Substituting "CFLAGS" with "-fopenmp -fPIC" Defined make macro "CC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "CPP" with "gcc -E" Substituting "CPPFLAGS" with "" Substituting "CXX" with "g++" Substituting "CXX_CXXFLAGS" with "" Substituting "CXXFLAGS" with "-fopenmp -fPIC" Substituting "CXX_LINKER_SLFLAG" with "-Wl,-rpath," Substituting "CXXCPP" with "g++ -E" Substituting "CXXCPPFLAGS" with "" Substituting "FC" with "gfortran" Substituting "FFLAGS" with "-fopenmp -fPIC" Defined make macro "FC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "LDFLAGS" with "" Substituting "LIBS" with "-ldl " Substituting "SHARED_LIBRARY_FLAG" with "" ================================================================================ TEST checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/sharedLibraries.py:36) TESTING: checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:36) ================================================================================ TEST configureSharedLibraries from PETSc.options.sharedLibraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/sharedLibraries.py:52) TESTING: configureSharedLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:52) 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 "" and code [] Defined make macro "BUILDSHAREDLIB" to "no" Defined "HAVE_SHARED_LIBRARIES" to "1" Shared libraries - disabled ================================================================================ TEST configureDynamicLibraries from PETSc.options.sharedLibraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/sharedLibraries.py:96) TESTING: configureDynamicLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:96) Checks whether dynamic loading is available (with dlfcn.h and libdl) Defined "HAVE_DYNAMIC_LIBRARIES" to "1" ================================================================================ TEST configureSerializedFunctions from PETSc.options.sharedLibraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/sharedLibraries.py:102) TESTING: configureSerializedFunctions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:102) Defines PETSC_SERIALIZE_FUNCTIONS if they are used Requires shared libraries ================================================================================ TEST configureIndexSize from PETSc.options.indexTypes(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/indexTypes.py:30) TESTING: configureIndexSize from PETSc.options.indexTypes(config/PETSc/options/indexTypes.py:30) Defined make macro "PETSC_INDEX_SIZE" to "32" ================================================================================ TEST configureCompilerFlags from config.compilerFlags(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilerFlags.py:72) TESTING: configureCompilerFlags from config.compilerFlags(config/BuildSystem/config/compilerFlags.py:72) Get the default compiler flags Ignoring default options which were overridden using --CFLAGS -fopenmp -fPIC Trying C compiler flag Ignoring default options which were overridden using --CXXFLAGS -fopenmp -fPIC Trying Cxx compiler flag Ignoring default options which were overridden using --FFLAGS -fopenmp -fPIC Trying FC compiler flag Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end Executing: gcc --version stdout: gcc (GCC) 5.2.0 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: gcc gcc (GCC) 5.2.0 Executing: g++ --version stdout: g++ (GCC) 5.2.0 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: g++ g++ (GCC) 5.2.0 Executing: gfortran --version stdout: GNU Fortran (GCC) 5.2.0 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: gfortran GNU Fortran (GCC) 5.2.0 Executing: gcc --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: . ================================================================================ TEST checkRestrict from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:146) TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:146) Check for the C/CXX restrict keyword Executing: gcc -V All intermediate test results are stored in /tmp/petsc-ugU6A3/config.compilers Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: 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" ================================================================================ TEST checkCFormatting from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:399) TESTING: checkCFormatting from config.compilers(config/BuildSystem/config/compilers.py:399) Activate format string checking if using the GNU compilers ================================================================================ TEST checkCInline from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:116) TESTING: checkCInline from config.compilers(config/BuildSystem/config/compilers.py:116) Check for C inline keyword Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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 Inline keyword to inline Defined "C_INLINE" to "inline" ================================================================================ TEST checkDynamicLoadFlag from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:410) TESTING: checkDynamicLoadFlag from config.compilers(config/BuildSystem/config/compilers.py:410) Checks that dlopen() takes RTLD_XXX, and defines PETSC_HAVE_RTLD_XXX if it does Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_LAZY); ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_LAZY" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_NOW); ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_NOW" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_LOCAL); ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_LOCAL" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_GLOBAL); ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_GLOBAL" to "1" ================================================================================ TEST checkCLibraries from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:210) TESTING: checkCLibraries from config.compilers(config/BuildSystem/config/compilers.py:210) Determines the libraries needed to link with C compiled code Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void asub(void) {char s[16];printf("testing %s",s);} Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -ldl C libraries are not needed when using Fortran linker Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void asub(void) {char s[16];printf("testing %s",s);} Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: g++ -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -ldl C libraries are not needed when using C++ linker ================================================================================ TEST checkDependencyGenerationFlag from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1599) TESTING: checkDependencyGenerationFlag from config.compilers(config/BuildSystem/config/compilers.py:1599) 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" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -MMD -MP /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Trying Cxx compiler flag -MMD -MP Defined make macro "CXX_DEPFLAGS" to "-MMD -MP" Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -MMD -MP /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Trying FC compiler flag -MMD -MP Defined make macro "FC_DEPFLAGS" to "-MMD -MP" Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -MMD -MP /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main end ================================================================================ TEST checkC99Flag from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1645) TESTING: checkC99Flag from config.compilers(config/BuildSystem/config/compilers.py:1645) Check for -std=c99 or equivalent flag Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: 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; } Accepted C99 compile flag: Defined "HAVE_C99" to "1" Executing: g++ --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: . ================================================================================ TEST checkRestrict from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:146) TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:146) Check for the C/CXX restrict keyword Executing: gcc -V Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: 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" ================================================================================ TEST checkCxxNamespace from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:450) TESTING: checkCxxNamespace from config.compilers(config/BuildSystem/config/compilers.py:450) Checks that C++ compiler supports namespaces, and if it does defines HAVE_CXX_NAMESPACE Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" namespace petsc {int dummy;} int main() { ; return 0; } Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } compilers: C++ has namespaces Defined "HAVE_CXX_NAMESPACE" to "1" ================================================================================ TEST checkCxxOptionalExtensions from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:423) TESTING: checkCxxOptionalExtensions from config.compilers(config/BuildSystem/config/compilers.py:423) Check whether the C++ compiler (IBM xlC, OSF5) need special flag for .c files which contain C++ Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { class somename { int i; };; return 0; } ================================================================================ TEST checkCxxInline from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:131) TESTING: checkCxxInline from config.compilers(config/BuildSystem/config/compilers.py:131) Check for C++ inline keyword Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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 Inline keyword to inline Defined "CXX_INLINE" to "inline" ================================================================================ TEST checkCxxLibraries from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:508) TESTING: checkCxxLibraries from config.compilers(config/BuildSystem/config/compilers.py:508) Determines the libraries needed to link with C++ Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include void asub(void) {std::vector v; try { throw 20; } catch (int e) { std::cout << "An exception occurred"; }} Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.compilers/confc.o: In function `asub()': conftest.cc:(.text+0x1b): undefined reference to `__cxa_allocate_exception' conftest.cc:(.text+0x2d): undefined reference to `typeinfo for int' conftest.cc:(.text+0x38): undefined reference to `__cxa_throw' conftest.cc:(.text+0x4b): undefined reference to `__cxa_begin_catch' conftest.cc:(.text+0x5e): undefined reference to `std::cout' conftest.cc:(.text+0x66): undefined reference to `std::basic_ostream >& std::operator<< >(std::basic_ostream >&, char const*)' conftest.cc:(.text+0x6b): undefined reference to `__cxa_end_catch' conftest.cc:(.text+0x81): undefined reference to `__cxa_end_catch' /tmp/petsc-ugU6A3/config.compilers/confc.o: In function `__static_initialization_and_destruction_0(int, int)': conftest.cc:(.text+0xc8): undefined reference to `std::ios_base::Init::Init()' conftest.cc:(.text+0xdd): undefined reference to `std::ios_base::Init::~Init()' /tmp/petsc-ugU6A3/config.compilers/confc.o: In function `__gnu_cxx::new_allocator::deallocate(int*, unsigned long)': conftest.cc:(.text._ZN9__gnu_cxx13new_allocatorIiE10deallocateEPim[_ZN9__gnu_cxx13new_allocatorIiE10deallocateEPim]+0x1c): undefined reference to `operator delete(void*)' /tmp/petsc-ugU6A3/config.compilers/confc.o:(.data.DW.ref._ZTIi[DW.ref._ZTIi]+0x0): undefined reference to `typeinfo for int' /tmp/petsc-ugU6A3/config.compilers/confc.o:(.data.DW.ref.__gxx_personality_v0[DW.ref.__gxx_personality_v0]+0x0): undefined reference to `__gxx_personality_v0' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.compilers/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.compilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include void asub(void) {std::vector v; try { throw 20; } catch (int e) { std::cout << "An exception occurred"; }} Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl compilers: C++ requires -lstdc++ to link with C compiler Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include void asub(void) {std::vector v; try { throw 20; } catch (int e) { std::cout << "An exception occurred"; }} Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main print*,'testing' stop end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl C++ libraries are not needed when using FC linker ================================================================================ TEST checkCxx11 from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:465) TESTING: checkCxx11 from config.compilers(config/BuildSystem/config/compilers.py:465) 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. Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Possible ERROR while running compiler: exit code 1 stderr: In file included from /apps/cent7/gcc/5.2.0/include/c++/5.2.0/random:35:0, from /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:4: /apps/cent7/gcc/5.2.0/include/c++/5.2.0/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-ugU6A3/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-ugU6A3/config.setCompilers/conftest.cc:5:32: note: C++11 ‘constexpr’ only available with -std=c++11 or -std=gnu++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc: In function ‘int main()’: /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:10:11: error: ‘random_device’ is not a member of ‘std’ std::random_device rd; ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:11:11: error: ‘mt19937’ is not a member of ‘std’ std::mt19937 mt(rd()); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:12:11: error: ‘normal_distribution’ is not a member of ‘std’ std::normal_distribution dist(0,1); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:12:36: error: expected primary-expression before ‘double’ std::normal_distribution dist(0,1); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:13:33: error: ‘mt’ was not declared in this scope const double x = dist(mt); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:13:35: error: ‘dist’ was not declared in this scope 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 /apps/cent7/gcc/5.2.0/include/c++/5.2.0/random:35:0, from /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:4: /apps/cent7/gcc/5.2.0/include/c++/5.2.0/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-ugU6A3/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-ugU6A3/config.setCompilers/conftest.cc:5:32: note: C++11 ‘constexpr’ only available with -std=c++11 or -std=gnu++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc: In function ‘int main()’: /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:10:11: error: ‘random_device’ is not a member of ‘std’ std::random_device rd; ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:11:11: error: ‘mt19937’ is not a member of ‘std’ std::mt19937 mt(rd()); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:12:11: error: ‘normal_distribution’ is not a member of ‘std’ std::normal_distribution dist(0,1); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:12:36: error: expected primary-expression before ‘double’ std::normal_distribution dist(0,1); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:13:33: error: ‘mt’ was not declared in this scope const double x = dist(mt); ^ /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc:13:35: error: ‘dist’ was not declared in this scope const double x = dist(mt); ^ PETSc Error: No output file produced Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: 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; } ================================================================================ TEST checkFortranTypeSizes from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:722) TESTING: checkFortranTypeSizes from config.compilers(config/BuildSystem/config/compilers.py:722) Check whether real*8 is supported and suggest flags which will allow support Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main real*8 variable end ================================================================================ TEST checkFortranNameMangling from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:782) TESTING: checkFortranNameMangling from config.compilers(config/BuildSystem/config/compilers.py:782) 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;} Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void d1chk_(void){return;} Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main call d1chk() end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl compilers: Fortran name mangling is underscore Defined "HAVE_FORTRAN_UNDERSCORE" to "1" Executing: gfortran --version stdout: GNU Fortran (GCC) 5.2.0 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 Defined "FORTRAN_CHARLEN_T" to "int" ================================================================================ TEST checkFortranNameManglingDouble from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:823) TESTING: checkFortranNameManglingDouble from config.compilers(config/BuildSystem/config/compilers.py:823) Checks if symbols containing an underscore append an extra underscore, and defines HAVE_FORTRAN_UNDERSCORE_UNDERSCORE if necessary Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" void d1_chk__(void){return;} Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main call d1_chk() end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.compilers/conftest.o: In function `MAIN__': conftest.F90:(.text+0xa): undefined reference to `d1_chk_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.compilers/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.compilers/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST checkFortranPreprocessor from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:833) TESTING: checkFortranPreprocessor from config.compilers(config/BuildSystem/config/compilers.py:833) Determine if Fortran handles preprocessing properly compilers: Fortran uses CPP preprocessor Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main #define dummy dummy #ifndef dummy fooey #endif end ================================================================================ TEST checkFortranDefineCompilerOption from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:857) TESTING: checkFortranDefineCompilerOption from config.compilers(config/BuildSystem/config/compilers.py:857) 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 Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -DTesting /tmp/petsc-ugU6A3/config.setCompilers/conftest.F90 Successful compile: Source: program main #define dummy dummy #ifndef Testing fooey #endif end ================================================================================ TEST checkFortranLibraries from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:877) TESTING: checkFortranLibraries from config.compilers(config/BuildSystem/config/compilers.py:877) 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. Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.compilers/conftest.F90:2:0: #include ^ Fatal Error: mpif.h: No such file or directory compilation terminated. Source: program main #include call MPI_Allreduce() end Compile failed inside link Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: subroutine asub() print*,'testing' return end Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: gcc -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.compilers/confc.o: In function `asub_': conftest.F90:(.text+0x42): undefined reference to `_gfortran_st_write' conftest.F90:(.text+0x5d): undefined reference to `_gfortran_transfer_character_write' conftest.F90:(.text+0x6c): undefined reference to `_gfortran_st_write_done' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.compilers/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.compilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Fortran code cannot directly be linked with C linker, therefor will determine needed Fortran libraries Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: subroutine asub() print*,'testing' return end Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Executing: g++ -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.compilers/confc.o: In function `asub_': conftest.F90:(.text+0x42): undefined reference to `_gfortran_st_write' conftest.F90:(.text+0x5d): undefined reference to `_gfortran_transfer_character_write' conftest.F90:(.text+0x6c): undefined reference to `_gfortran_st_write_done' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.compilers/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.compilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Fortran code cannot directly be linked with C++ linker, therefor will determine needed Fortran libraries Executing: gfortran -V Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -v -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: Driving: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -v -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -lstdc++ -ldl -l gfortran -l m -shared-libgcc Using built-in specs. COLLECT_GCC=gfortran COLLECT_LTO_WRAPPER=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/lto-wrapper Target: x86_64-unknown-linux-gnu Configured with: /tmp/aai/gcc-5.2.0/configure --prefix=/apps/cent7/gcc/5.2.0 --enable-languages=c,c++,fortran --enable-shared --enable-threads=posix --disable-checking --disable-multilib --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-java-awt=gtk --with-gmp=/apps/cent7/gcc/5.2.0/gmp-6.1.0 --with-mpfr=/apps/cent7/gcc/5.2.0/mpfr-3.1.3 --with-mpc=/apps/cent7/gcc/5.2.0/mpc-1.0.3 Thread model: posix gcc version 5.2.0 (GCC) Reading specs from /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/libgfortran.spec rename spec lib to liborig COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-ugU6A3/config.compilers/conftest' '-v' '-fopenmp' '-fPIC' '-shared-libgcc' '-mtune=generic' '-march=x86-64' '-pthread' COMPILER_PATH=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/ LIBRARY_PATH=/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../:/lib/:/usr/lib/ Reading specs from /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/libgomp.spec COLLECT_GCC_OPTIONS='-o' '/tmp/petsc-ugU6A3/config.compilers/conftest' '-v' '-fopenmp' '-fPIC' '-shared-libgcc' '-mtune=generic' '-march=x86-64' '-pthread' /apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/collect2 -plugin /apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/liblto_plugin.so -plugin-opt=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/lto-wrapper -plugin-opt=-fresolution=/tmp/cc8IQ4VO.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lquadmath -plugin-opt=-pass-through=-lm -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lpthread -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-ugU6A3/config.compilers/conftest /lib/../lib64/crt1.o /lib/../lib64/crti.o /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/crtbegin.o -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../.. /tmp/petsc-ugU6A3/config.compilers/conftest.o -lstdc++ -ldl -lgfortran -lm -lgomp -lgcc_s -lgcc -lquadmath -lm -lgcc_s -lgcc -lpthread -lc -lgcc_s -lgcc /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/crtend.o /lib/../lib64/crtn.o compilers: Checking arg Driving: compilers: Unknown arg Driving: compilers: Checking arg gfortran compilers: Unknown arg gfortran compilers: Checking arg -o compilers: Unknown arg -o compilers: Checking arg /tmp/petsc-ugU6A3/config.compilers/conftest compilers: Unknown arg /tmp/petsc-ugU6A3/config.compilers/conftest compilers: Checking arg -v compilers: Unknown arg -v compilers: Checking arg -fopenmp compilers: Unknown arg -fopenmp compilers: Checking arg -fPIC compilers: Unknown arg -fPIC compilers: Checking arg /tmp/petsc-ugU6A3/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-ugU6A3/config.compilers/conftest.o compilers: Checking arg -lstdc++ compilers: Found library: -lstdc++ compilers: Checking arg -ldl compilers: Found library: -ldl 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=gfortran compilers: Unknown arg COLLECT_GCC=gfortran compilers: Checking arg COLLECT_LTO_WRAPPER=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/lto-wrapper compilers: Unknown arg COLLECT_LTO_WRAPPER=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/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 /tmp/aai/gcc-5.2.0/configure compilers: Unknown arg /tmp/aai/gcc-5.2.0/configure compilers: Checking arg --prefix=/apps/cent7/gcc/5.2.0 compilers: Unknown arg --prefix=/apps/cent7/gcc/5.2.0 compilers: Checking arg --enable-languages=c,c++,fortran compilers: Unknown arg --enable-languages=c,c++,fortran compilers: Checking arg --enable-shared compilers: Unknown arg --enable-shared compilers: Checking arg --enable-threads=posix compilers: Unknown arg --enable-threads=posix compilers: Checking arg --disable-checking compilers: Unknown arg --disable-checking compilers: Checking arg --disable-multilib compilers: Unknown arg --disable-multilib compilers: Checking arg --with-system-zlib compilers: Unknown arg --with-system-zlib compilers: Checking arg --enable-__cxa_atexit compilers: Unknown arg --enable-__cxa_atexit compilers: Checking arg --disable-libunwind-exceptions compilers: Unknown arg --disable-libunwind-exceptions compilers: Checking arg --enable-java-awt=gtk compilers: Unknown arg --enable-java-awt=gtk compilers: Checking arg --with-gmp=/apps/cent7/gcc/5.2.0/gmp-6.1.0 compilers: Unknown arg --with-gmp=/apps/cent7/gcc/5.2.0/gmp-6.1.0 compilers: Checking arg --with-mpfr=/apps/cent7/gcc/5.2.0/mpfr-3.1.3 compilers: Unknown arg --with-mpfr=/apps/cent7/gcc/5.2.0/mpfr-3.1.3 compilers: Checking arg --with-mpc=/apps/cent7/gcc/5.2.0/mpc-1.0.3 compilers: Unknown arg --with-mpc=/apps/cent7/gcc/5.2.0/mpc-1.0.3 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 5.2.0 compilers: Unknown arg 5.2.0 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 /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/libgfortran.spec compilers: Unknown arg /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../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=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Skipping arg COMPILER_PATH=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/ compilers: Checking arg LIBRARY_PATH=/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../:/lib/:/usr/lib/ compilers: Skipping arg LIBRARY_PATH=/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/:/lib/../lib64/:/usr/lib/../lib64/:/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../:/lib/:/usr/lib/ 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 /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/libgomp.spec compilers: Unknown arg /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64/libgomp.spec compilers: Checking arg COLLECT_GCC_OPTIONS= compilers: Unknown arg COLLECT_GCC_OPTIONS= compilers: Checking arg /apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/collect2 compilers: Unknown arg /apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/collect2 compilers: Checking arg -plugin compilers: Unknown arg -plugin compilers: Checking arg /apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/liblto_plugin.so compilers: Unknown arg /apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/liblto_plugin.so compilers: Checking arg -plugin-opt=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/lto-wrapper compilers: Unknown arg -plugin-opt=/apps/cent7/gcc/5.2.0/libexec/gcc/x86_64-unknown-linux-gnu/5.2.0/lto-wrapper compilers: Checking arg -plugin-opt=-fresolution=/tmp/cc8IQ4VO.res compilers: Unknown arg -plugin-opt=-fresolution=/tmp/cc8IQ4VO.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=-lpthread compilers: Unknown arg -plugin-opt=-pass-through=-lpthread 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-ugU6A3/config.compilers/conftest compilers: Unknown arg /tmp/petsc-ugU6A3/config.compilers/conftest compilers: Checking arg /lib/../lib64/crt1.o compilers: Unknown arg /lib/../lib64/crt1.o compilers: Checking arg /lib/../lib64/crti.o compilers: Unknown arg /lib/../lib64/crti.o compilers: Checking arg /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/crtbegin.o compilers: Unknown arg /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/crtbegin.o compilers: Checking arg -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 compilers: Found library directory: -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 compilers: Checking arg -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../../../lib64 compilers: Found library directory: -L/apps/cent7/gcc/5.2.0/lib64 compilers: Checking arg -L/lib/../lib64 compilers: Checking arg -L/usr/lib/../lib64 compilers: Checking arg -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/../../.. compilers: Found library directory: -L/apps/cent7/gcc/5.2.0/lib compilers: Checking arg /tmp/petsc-ugU6A3/config.compilers/conftest.o compilers: Unknown arg /tmp/petsc-ugU6A3/config.compilers/conftest.o compilers: Checking arg -lstdc++ compilers: Already in lflags: -lstdc++ compilers: Checking arg -ldl compilers: Already in lflags: -ldl compilers: Checking arg -lgfortran compilers: Found library: -lgfortran compilers: Checking arg -lm compilers: Found library: -lm compilers: Checking arg -lgomp compilers: Found library: -lgomp compilers: Checking arg -lgcc_s compilers: Found library: -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 -lpthread compilers: Found library: -lpthread 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 /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/crtend.o compilers: Unknown arg /apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0/crtend.o compilers: Checking arg /lib/../lib64/crtn.o compilers: Unknown arg /lib/../lib64/crtn.o compilers: Libraries needed to link Fortran code with the C linker: ['-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] compilers: Libraries needed to link Fortran main with the C linker: [] compilers: Check that Fortran libraries can be used from C Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.setCompilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Executing: gcc -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest compilers: Check that Fortran libraries can be used from C++ compilers: Fortran libraries can be used from C++ Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.setCompilers/conftest: No such file or directory collect2: error: ld returned 1 exit status Executing: g++ -c -o /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.setCompilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.setCompilers/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest Executing: /tmp/petsc-ugU6A3/config.setCompilers/conftest ================================================================================ TEST checkFortranLinkingCxx from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1273) TESTING: checkFortranLinkingCxx from config.compilers(config/BuildSystem/config/compilers.py:1273) Check that Fortran can be linked against C++ Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern "C" void d1chk_(void); void foo(void){d1chk_();} Executing: g++ -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" extern "C" void d1chk_(void); void d1chk_(void){return;} Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main call d1chk() end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/cxxobj.o /tmp/petsc-ugU6A3/config.compilers/confc.o -lstdc++ -ldl compilers: Fortran can link C++ functions ================================================================================ TEST checkFortran90 from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1339) TESTING: checkFortran90 from config.compilers(config/BuildSystem/config/compilers.py:1339) Determine whether the Fortran compiler handles F90 Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8) INTEGER (KIND=int) :: ierr ierr = 1 end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -lstdc++ -ldl Defined "USING_F90" to "1" Fortran compiler supports F90 ================================================================================ TEST checkFortran90FreeForm from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1352) TESTING: checkFortran90FreeForm from config.compilers(config/BuildSystem/config/compilers.py:1352) Determine whether the Fortran compiler handles F90FreeForm We also require that the compiler handles lines longer than 132 characters Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.compilers/conftest.F90:2:132: INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8); INTEGER (KIND=int) :: ierr; ierr = 1 1 Error: Line truncated at (1) [-Werror=line-truncation] /tmp/petsc-ugU6A3/config.compilers/conftest.F90:2:110: INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8); INTEGER (KIND=int) :: ierr; ierr = 1 1 Error: Unclassifiable statement at (1) f951: some warnings being treated as errors Source: program main INTEGER, PARAMETER :: int = SELECTED_INT_KIND(8); INTEGER (KIND=int) :: ierr; ierr = 1 end Compile failed inside link Fortran compiler does not support F90FreeForm ================================================================================ TEST checkFortran2003 from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1366) TESTING: checkFortran2003 from config.compilers(config/BuildSystem/config/compilers.py:1366) Determine whether the Fortran compiler handles F2003 Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: 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 Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -lstdc++ -ldl Defined "USING_F2003" to "1" Fortran compiler supports F2003 ================================================================================ TEST checkFortran90Array from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1401) TESTING: checkFortran90Array from config.compilers(config/BuildSystem/config/compilers.py:1401) Check for F90 array interfaces Executing: uname -s stdout: Linux Executing: gcc -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/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 Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/fooobj.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.compilers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.compilers/conftest Executing: /tmp/petsc-ugU6A3/config.compilers/conftest stdout: arrays [0x7ffd0bf37330 0x7ffd0bf37330 0x7ffd0bf37330] arrays [0x7ffd0bf372e0 0x7ffd0bf37290 0x7ffd0bf372e0] pointers do not match! [0x2b1a2a021e00 0x7ffd0bf37330] [0x2b1a2b68614d] ERROR while running executable: Could not execute "['/tmp/petsc-ugU6A3/config.compilers/conftest']": arrays [0x7ffd0bf37330 0x7ffd0bf37330 0x7ffd0bf37330] arrays [0x7ffd0bf372e0 0x7ffd0bf37290 0x7ffd0bf372e0] pointers do not match! [0x2b1a2a021e00 0x7ffd0bf37330] [0x2b1a2b68614d] compilers: F90 uses a single argument for array pointers ================================================================================ TEST checkFortranModuleInclude from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1488) TESTING: checkFortranModuleInclude from config.compilers(config/BuildSystem/config/compilers.py:1488) Figures out what flag is used to specify the include path for Fortran modules Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: module configtest integer testint parameter (testint = 42) end module configtest Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers/confdir -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main use configtest write(*,*) testint end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -I/tmp/petsc-ugU6A3/config.compilers/confdir -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o /tmp/petsc-ugU6A3/config.compilers/configtest.o -lstdc++ -ldl compilers: Fortran module include flag -I found ================================================================================ TEST checkFortranModuleOutput from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1554) TESTING: checkFortranModuleOutput from config.compilers(config/BuildSystem/config/compilers.py:1554) Figures out what flag is used to specify the include path for Fortran modules Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -module /tmp/petsc-ugU6A3/config.compilers/confdir -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 1 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: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -module:/tmp/petsc-ugU6A3/config.compilers/confdir -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: gfortran: error: unrecognized command line option ‘-module:/tmp/petsc-ugU6A3/config.compilers/confdir’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -module: compile failed Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fmod=/tmp/petsc-ugU6A3/config.compilers/confdir -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Possible ERROR while running compiler: exit code 1 stderr: gfortran: error: unrecognized command line option ‘-fmod=/tmp/petsc-ugU6A3/config.compilers/confdir’ Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -fmod= compile failed Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -J/tmp/petsc-ugU6A3/config.compilers/confdir -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: module configtest integer testint parameter (testint = 42) end module configtest compilers: Fortran module output flag -J found ================================================================================ TEST checkFortranTypeStar from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1328) TESTING: checkFortranTypeStar from config.compilers(config/BuildSystem/config/compilers.py:1328) Determine whether the Fortran compiler handles type(*) Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main interface subroutine a(b) type(*) :: b(:) end subroutine end interface end Defined "HAVE_FORTRAN_TYPE_STAR" to "1" Fortran compiler supports type(*) ================================================================================ TEST checkFortranTypeInitialize from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1317) TESTING: checkFortranTypeInitialize from config.compilers(config/BuildSystem/config/compilers.py:1317) Determines if PETSc objects in Fortran are initialized by default (doesn't work with common blocks) Defined "HAVE_FORTRAN_TYPE_INITIALIZE" to "-2" Defined "FORTRAN_TYPE_INITIALIZE" to " = -2" Initializing Fortran objects ================================================================================ TEST configureFortranFlush from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1308) TESTING: configureFortranFlush from config.compilers(config/BuildSystem/config/compilers.py:1308) Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.compilers/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.F90 Successful compile: Source: program main call flush(6) end Executing: gfortran -o /tmp/petsc-ugU6A3/config.compilers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.compilers/conftest.o -lstdc++ -ldl Defined "HAVE_FORTRAN_FLUSH" to "1" ================================================================================ TEST setupFrameworkCompilers from config.compilers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/compilers.py:1721) TESTING: setupFrameworkCompilers from config.compilers(config/BuildSystem/config/compilers.py:1721) ================================================================================ TEST configureClosure from config.utilities.closure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/closure.py:17) TESTING: configureClosure from config.utilities.closure(config/BuildSystem/config/utilities/closure.py:17) Determine if Apple ^close syntax is supported in C All intermediate test results are stored in /tmp/petsc-ugU6A3/config.utilities.closure Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.closure/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.closure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.utilities.closure/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/fortranCPP.py:20) TESTING: configureFortranCPP from PETSc.options.fortranCPP(config/PETSc/options/fortranCPP.py:20) 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 configureCLanguage from PETSc.options.languages(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 =============================================================================== WARNING -with-clanguage=C++ is a developer feature and is *not* required for regular usage of PETSc either from C or C++ =============================================================================== C language is Cxx Defined "CLANGUAGE_CXX" to "1" ================================================================================ TEST checkStdC from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/headers.py:105) TESTING: checkStdC from config.headers(config/BuildSystem/config/headers.py:105) Executing: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Source: #include "confdefs.h" #include "conffix.h" #include Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Executing: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.headers/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.headers/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.headers/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.headers/conftest Executing: /tmp/petsc-ugU6A3/config.headers/conftest Defined "STDC_HEADERS" to "1" ================================================================================ TEST checkStat from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c ================================================================================ TEST checkSysWait from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" Checking for header: sys/time.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIME_H" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MATH_H" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double f = INFINITY; if (f); ; return 0; } Defined "HAVE_MATH_INFINITY" to "1" Found math INFINITY ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SETJMP_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_ENDIAN_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FCNTL_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_LIMITS_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MALLOC_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PWD_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SEARCH_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRINGS_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_UNISTD_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PARAM_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PROCFS_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_RESOURCE_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIMES_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_UTSNAME_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRING_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDLIB_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SOCKET_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_WAIT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETINET_IN_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETDB_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TYPES_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDINT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SCHED_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PTHREAD_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_INTTYPES_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: immintrin.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_IMMINTRIN_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: zmmintrin.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SETJMP_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_ENDIAN_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FCNTL_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_LIMITS_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MALLOC_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PWD_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SEARCH_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRINGS_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_UNISTD_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PARAM_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PROCFS_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_RESOURCE_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIMES_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_UTSNAME_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRING_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDLIB_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SOCKET_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_WAIT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETINET_IN_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETDB_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TYPES_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: cxxabi.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directorycompilation terminated.: ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDINT_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SCHED_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PTHREAD_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_INTTYPES_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: immintrin.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_IMMINTRIN_H" to "1" ================================================================================ TEST check from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: zmmintrin.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directorycompilation terminated.: ================================================================================ TEST checkRecursiveMacros from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/headers.py:223) TESTING: checkRecursiveMacros from config.headers(config/BuildSystem/config/headers.py:223) Checks that the preprocessor allows recursive macros, and if not defines HAVE_BROKEN_RECURSIVE_MACRO Executing: gcc -c -o /tmp/petsc-ugU6A3/config.headers/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/cacheDetails.py:77) TESTING: configureCacheDetails from config.utilities.cacheDetails(config/BuildSystem/config/utilities/cacheDetails.py:77) Try to determine the size and associativity of the cache. All intermediate test results are stored in /tmp/petsc-ugU6A3/config.utilities.cacheDetails Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest Executing: /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest Defined "LEVEL1_DCACHE_SIZE" to "32768" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest Executing: /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest Defined "LEVEL1_DCACHE_LINESIZE" to "64" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest Executing: /tmp/petsc-ugU6A3/config.utilities.cacheDetails/conftest Defined "LEVEL1_DCACHE_ASSOC" to "8" ================================================================================ TEST check_struct_sigaction from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/types.py:46) TESTING: check_struct_sigaction from config.types(config/BuildSystem/config/types.py:46) Checks if "struct sigaction" exists in signal.h. This check is for C89 check. Checking for type: struct sigaction All intermediate test results are stored in /tmp/petsc-ugU6A3/config.types Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #if STDC_HEADERS #include #include #include #endif int main() { struct sigaction a;; return 0; } struct sigaction found Defined "HAVE_STRUCT_SIGACTION" to "1" ================================================================================ TEST check__int64 from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.types/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/config.types/conftest.c:13:1: error: unknown type name ‘__int64’ __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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.types/conftest.c ================================================================================ TEST checkSignal from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Defined "HAVE_C99_COMPLEX" to "1" ================================================================================ TEST checkCxxComplex from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/types.py:117) TESTING: checkCxxComplex from config.types(config/BuildSystem/config/types.py:117) Check for complex numbers in namespace std Executing: g++ -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.types/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { std::complex x; ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Defined "HAVE_CXX_COMPLEX" to "1" ================================================================================ TEST checkFortranKind from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.F90 Successful compile: Source: program main integer(kind=selected_int_kind(10)) i real(kind=selected_real_kind(10)) d end Defined "USE_FORTRANKIND" to "1" ================================================================================ TEST checkConst from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.types/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/config.types/conftest.c:11:3: error: unknown type name ‘not’ not big endian ^ /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_CHAR" to "1" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 * Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_VOID_P" to "8" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_SHORT" to "2" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_INT" to "4" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_LONG" to "8" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_LONG_LONG" to "8" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_FLOAT" to "4" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_DOUBLE" to "8" ================================================================================ TEST checkSizeof from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "SIZEOF_SIZE_T" to "8" ================================================================================ TEST checkBitsPerByte from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.types/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.types/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.types/conftest Executing: /tmp/petsc-ugU6A3/config.types/conftest Defined "BITS_PER_BYTE" to "8" ================================================================================ TEST checkVisibility from config.types(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/types.py:356) TESTING: checkVisibility from config.types(config/BuildSystem/config/types.py:356) Disabled visibility attributes due to static build================================================================================ TEST configureMemAlign from PETSc.options.memAlign(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/memAlign.py:29) TESTING: configureMemAlign from PETSc.options.memAlign(config/PETSc/options/memAlign.py:29) Choose alignment Defined "MEMALIGN" to "16" Memory alignment is 16 ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lsocket -lnsl -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lsocket /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lfpe -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lfpe /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lsocket -lnsl -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lsocket /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lfpe -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: cannot find -lfpe /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST checkMath from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:261) TESTING: checkMath from config.libraries(config/BuildSystem/config/libraries.py:261) Check for sin() in libm, the math library Checking for functions [sin floor log10 pow] in library [''] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/pbs/bin/ld: /tmp/petsc-ugU6A3/config.libraries/conftest.o: undefined reference to symbol 'floor@@GLIBC_2.2.5' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [sin floor log10 pow] in library ['m'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" CheckMath: using math library ['libm.a'] ================================================================================ TEST checkMathErf from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:280) TESTING: checkMathErf from config.libraries(config/BuildSystem/config/libraries.py:280) Check for erf() in libm, the math library Checking for functions [erf] in library ['libm.a'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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_erf() { double (*checkErf)(double) = erf;double x = 0,y; y = (*checkErf)(x); } int main() { _check_erf();; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" erf() found Defined "HAVE_ERF" to "1" ================================================================================ TEST checkMathTgamma from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:289) TESTING: checkMathTgamma from config.libraries(config/BuildSystem/config/libraries.py:289) Check for tgamma() in libm, the math library Checking for functions [tgamma] in library ['libm.a'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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_tgamma() { double (*checkTgamma)(double) = tgamma;double x = 0,y; y = (*checkTgamma)(x); } int main() { _check_tgamma();; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" tgamma() found Defined "HAVE_TGAMMA" to "1" ================================================================================ TEST checkMathFenv from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:298) TESTING: checkMathFenv from config.libraries(config/BuildSystem/config/libraries.py:298) Checks if can be used with FE_DFL_ENV Checking for functions [fesetenv] in library ['libm.a'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" Defined "HAVE_FENV_H" to "1" ================================================================================ TEST checkMathLog2 from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:306) TESTING: checkMathLog2 from config.libraries(config/BuildSystem/config/libraries.py:306) Check for log2() in libm, the math library Checking for functions [log2] in library ['libm.a'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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_log2() { double (*checkLog2)(double) = log2; double x = 2.5, y = (*checkLog2)(x); } int main() { _check_log2();; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" log2() found Defined "HAVE_LOG2" to "1" ================================================================================ TEST checkRealtime from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:315) TESTING: checkRealtime from config.libraries(config/BuildSystem/config/libraries.py:315) Check for presence of clock_gettime() in realtime library (POSIX Realtime extensions) Checking for functions [clock_gettime] in library [''] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl realtime functions are linked in by default ================================================================================ TEST checkDynamic from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:331) TESTING: checkDynamic from config.libraries(config/BuildSystem/config/libraries.py:331) Check for the header and libraries necessary for dynamic library manipulation Checking for functions [dlopen] in library ['dl'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -ldl -lstdc++ -ldl Defined "HAVE_LIBDL" to "1" Checking for header: dlfcn.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_DLFCN_H" to "1" ================================================================================ TEST configureLibraryOptions from PETSc.options.libraryOptions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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, PETSC_USE_FORTRAN_KERNELS, and PETSC_USE_AVX512_KERNELS Defined "USE_LOG" to "0" Executing: gcc -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 [''] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.o: In function `_check_bgl_perfctr_void': conftest.c:(.text+0xa): undefined reference to `bgl_perfctr_void' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [ADIOI_BGL_Open] in library [''] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.o: In function `_check_ADIOI_BGL_Open': conftest.c:(.text+0xa): undefined reference to `ADIOI_BGL_Open' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status *********BGL/IBM test failure Defined "Alignx(a,b)" to " " ================================================================================ TEST configureISColorValueType from PETSc.options.libraryOptions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/libraryOptions.py:95) TESTING: configureISColorValueType from PETSc.options.libraryOptions(config/PETSc/options/libraryOptions.py:95) 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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-ugU6A3/config.atomics Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/atomics.py:38) TESTING: configureMemoryBarriers from config.atomics(config/BuildSystem/config/atomics.py:38) Definitions for memory barrier instructions Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/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")" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `sync' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("sync":::"memory"); return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `lwsync' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("lwsync":::"memory"); return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `eieio' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("eieio":::"memory"); return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `dmb' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("dmb":::"memory"); return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `dmb ish' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("dmb ish":::"memory"); return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `dmb ishld' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("dmb ishld":::"memory"); return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.atomics/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/config.atomics/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.atomics/conftest.c: Assembler messages: /tmp/petsc-ugU6A3/config.atomics/conftest.c:5: Error: no such instruction: `dmb ishst' Source: #include "confdefs.h" #include "conffix.h" int main() { __asm__ __volatile__ ("dmb ishst":::"memory"); return 0; } ================================================================================ TEST checkMemcmp from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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-ugU6A3/config.functions Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.atomics -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.functions/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.functions/conftest Executing: /tmp/petsc-ugU6A3/config.functions/conftest ================================================================================ TEST checkSysinfo from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SYSINFO" to "1" Checking for header: linux/kernel.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_LINUX_KERNEL_H" to "1" Checking for header: sys/sysinfo.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" Checking for header: sys/systeminfo.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directorycompilation terminated.: Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.c:13:4: error: #error "Cannot check sysinfo without special headers" # error "Cannot check sysinfo without special headers" ^ /tmp/petsc-ugU6A3/config.functions/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/config.functions/conftest.c:17:30: 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VPRINTF" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl ================================================================================ TEST checkVFPrintf from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VFPRINTF" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl ================================================================================ TEST checkVSNPrintf from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VSNPRINTF" to "1" ================================================================================ TEST checkNanosleep from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/functions.py:202) TESTING: checkNanosleep from config.functions(config/BuildSystem/config/functions.py:202) Check for functional nanosleep() - as time.h behaves differently for different compiler flags - like -std=c89 Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_NANOSLEEP" to "1" ================================================================================ TEST checkMemmove from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/functions.py:208) TESTING: checkMemmove from config.functions(config/BuildSystem/config/functions.py:208) Check for functional memmove() - as MS VC requires correct includes to for this test Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { char c1[1], c2[1] = "c"; size_t n=1; memmove(c1,c2,n); ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_MEMMOVE" to "1" ================================================================================ TEST checkSignalHandlerType from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/functions.py:178) TESTING: checkSignalHandlerType from config.functions(config/BuildSystem/config/functions.py:178) Checks the type of C++ signals handlers, and defines SIGNAL_CAST to the correct value Executing: g++ -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/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; } Executing: g++ -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "SIGNAL_CAST" to " " ================================================================================ TEST checkFreeReturnType from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/functions.py:188) TESTING: checkFreeReturnType from config.functions(config/BuildSystem/config/functions.py:188) Checks whether free returns void or int, and defines HAVE_FREE_RETURN_INT Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/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; ^ 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/functions.py:194) TESTING: checkVariableArgumentLists from config.functions(config/BuildSystem/config/functions.py:194) Checks whether the variable argument list functionality is working Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VA_COPY" to "1" ================================================================================ TEST checkClassify from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 signal popen getrusage times _mkdir time sysctlbyname stricmp] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/config.functions/conftest.c:16:6: warning: conflicting types for built-in function ‘snprintf’ char snprintf(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:19:6: warning: conflicting types for built-in function ‘bzero’ char bzero(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:36:6: warning: conflicting types for built-in function ‘fork’ char fork(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:48:6: warning: conflicting types for built-in function ‘strcasecmp’ char strcasecmp(); ^ 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 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_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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0x5a): warning: the `getwd' function is dangerous and should not be used. conftest.c:(.text+0x1e): undefined reference to `_sleep' conftest.c:(.text+0x50): undefined reference to `_getcwd' conftest.c:(.text+0x6e): undefined reference to `_lseek' conftest.c:(.text+0x82): undefined reference to `_access' conftest.c:(.text+0xd2): undefined reference to `_snprintf' conftest.c:(.text+0x104): undefined reference to `sbreak' conftest.c:(.text+0x14a): undefined reference to `_set_output_format' conftest.c:(.text+0x154): undefined reference to `PXFGETARG' conftest.c:(.text+0x1b8): undefined reference to `_mkdir' conftest.c:(.text+0x1cc): undefined reference to `sysctlbyname' conftest.c:(.text+0x1d6): undefined reference to `stricmp' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory 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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/config.functions/conftest.c:17:6: warning: conflicting types for built-in function ‘bzero’ char bzero(); ^ /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -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 signal popen getrusage times time] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/config.functions/conftest.c:19:6: warning: conflicting types for built-in function ‘strcasecmp’ char strcasecmp(); ^ 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 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_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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -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_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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_sleep' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [snprintf] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SNPRINTF" to "1" Checking for functions [_getcwd] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_getcwd' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [getwd] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): warning: the `getwd' function is dangerous and should not be used. Defined "HAVE_GETWD" to "1" Checking for functions [_lseek] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_lseek' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [sleep] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SLEEP" to "1" Checking for functions [_access] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_access' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [lseek] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_LSEEK" to "1" Checking for functions [access] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_ACCESS" to "1" Checking for functions [_snprintf] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_snprintf' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [sbreak] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `sbreak' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [getcwd] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_GETCWD" to "1" Checking for functions [_set_output_format] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_set_output_format' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [PXFGETARG] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `PXFGETARG' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [_mkdir] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `_mkdir' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [sysctlbyname] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `sysctlbyname' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [stricmp] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `stricmp' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST checkMmap from config.functions(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/functions.py:214) TESTING: checkMmap from config.functions(config/BuildSystem/config/functions.py:214) Check for functional mmap() to allocate shared memory and define HAVE_MMAP Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include int main() { int fd; fd=open("/tmp/file",O_RDWR); mmap((void*)0,100,PROT_READ|PROT_WRITE,MAP_SHARED,fd,0); ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_MMAP" to "1" ================================================================================ TEST configureMemorySize from config.utilities.getResidentSetSize(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/fortranCommandLine.py:26) TESTING: configureFortranCommandLine from config.utilities.fortranCommandLine(config/BuildSystem/config/utilities/fortranCommandLine.py:26) Check for the mechanism to retrieve command line arguments in Fortran Defined "HAVE_FORTRAN_GET_COMMAND_ARGUMENT" to "1" Checking for functions [] in library [''] [] Executing: gfortran -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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 Executing: gfortran -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl Defined "HAVE_GFORTRAN_IARGC" to "1" Checking for functions [get_command_argument_] in library [''] ['-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.o: In function `_check_get_command_argument_': conftest.c:(.text+0xa): undefined reference to `get_command_argument_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [getarg_] in library [''] ['-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.o: In function `_check_getarg_': conftest.c:(.text+0xa): undefined reference to `getarg_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [ipxfargc_] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `ipxfargc_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [f90_unix_MP_iargc] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `f90_unix_MP_iargc' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [PXFGETARG] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `PXFGETARG' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [iargc_] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.o: In function `main': conftest.c:(.text+0xa): undefined reference to `iargc_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.functions/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.functions/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for functions [GETARG@16] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.functions/conftest.c:13:12: error: stray ‘@’ in program char GETARG@16(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:13:13: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before numeric constant char GETARG@16(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c: In function ‘main’: /tmp/petsc-ugU6A3/config.functions/conftest.c:21:27: error: missing ')' after "defined" #if defined (__stub_GETARG@16) || defined (__stub___GETARG@16) ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:21:28: error: missing binary operator before token "16" #if defined (__stub_GETARG@16) || defined (__stub___GETARG@16) ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:24:7: error: stray ‘@’ in program GETARG@16(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:24:1: error: ‘GETARG’ undeclared (first use in this function) GETARG@16(); ^ /tmp/petsc-ugU6A3/config.functions/conftest.c:24:1: note: each undeclared identifier is reported only once for each function it appears in /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.functions/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -o /tmp/petsc-ugU6A3/config.functions/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.functions/conftest.o -lstdc++ -ldl -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread Defined "HAVE__GFORTRAN_IARGC" to "1" ================================================================================ TEST configureFeatureTestMacros from config.utilities.featureTestMacros(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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-ugU6A3/config.utilities.featureTestMacros Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.featureTestMacros/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.utilities.featureTestMacros/conftest.c:4:20: fatal error: sysctl.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/missing.py:56) TESTING: configureMissingDefines from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:56) Checks for limits All intermediate test results are stored in /tmp/petsc-ugU6A3/config.utilities.missing Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/missing.py:66) TESTING: configureMissingUtypeTypedefs from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:66) Checks if u_short is undefined Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { u_short foo; ; return 0; } ================================================================================ TEST configureMissingFunctions from config.utilities.missing(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/missing.py:72) TESTING: configureMissingFunctions from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:72) Checks for SOCKETS ================================================================================ TEST configureMissingSignals from config.utilities.missing(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/missing.py:92) TESTING: configureMissingSignals from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:92) Check for missing signals, and define MISSING_ if necessary Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/missing.py:109) TESTING: configureMissingGetdomainnamePrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:109) Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: g++ -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/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; } Executing: g++ -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -lstdc++ -ldl ================================================================================ TEST configureMissingSrandPrototype from config.utilities.missing(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/utilities/missing.py:134) TESTING: configureMissingSrandPrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:134) Executing: gcc -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: g++ -c -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/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; } Executing: g++ -o /tmp/petsc-ugU6A3/config.utilities.missing/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.utilities.missing/conftest.o -lstdc++ -ldl ================================================================================ TEST configureFPTrap from config.utilities.FPTrap(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directorycompilation terminated.: Checking for header: fpxcp.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directorycompilation terminated.: Checking for header: floatingpoint.h Executing: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.c" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.c" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directorycompilation terminated.: ================================================================================ TEST configureScalarType from PETSc.options.scalarTypes(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/scalarTypes.py:36) TESTING: configureScalarType from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:36) Choose between real and complex numbers Defined "USE_SCALAR_REAL" to "1" Scalar type is real All intermediate test results are stored in /tmp/petsc-ugU6A3/PETSc.options.scalarTypes Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isnormal(b); ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISNORMAL" to "1" Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isnan(b); ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISNAN" to "1" Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isinf(b); ; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISINF" to "1" Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc: In function ‘int main()’: /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc:6:32: error: ‘_isnan’ was not declared in this scope 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; } Compile failed inside link Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc: In function ‘int main()’: /tmp/petsc-ugU6A3/PETSc.options.scalarTypes/conftest.cc:6:33: error: ‘_finite’ was not declared in this scope 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; } Compile failed inside link ================================================================================ TEST configurePrecision from PETSc.options.scalarTypes(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/options/scalarTypes.py:78) TESTING: configurePrecision from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:78) 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/programs.py:22) TESTING: configureMkdir from config.programs(config/BuildSystem/config/programs.py:22) Make sure we can have mkdir automatically make intermediate directories Checking for program /apps/cent7/xalt/bin/mkdir...not found Checking for program /apps/cent7/subversion/1.9.7/bin/mkdir...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/mkdir...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/mkdir...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/mkdir...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/mkdir...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/mkdir...not found Checking for program /apps/cent7/gcc/5.2.0/bin/mkdir...not found Checking for program ./mkdir...not found Checking for program /home/mpovolot/bin/mkdir...not found Checking for program /usr/pbs/bin/mkdir...found Executing: /usr/pbs/bin/mkdir -p .conftest/tmp Adding -p flag to /usr/pbs/bin/mkdir -p to automatically create directories Defined make macro "MKDIR" to "/usr/pbs/bin/mkdir -p" ================================================================================ TEST configureAutoreconf from config.programs(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/programs.py:44) TESTING: configureAutoreconf from config.programs(config/BuildSystem/config/programs.py:44) Check for autoreconf Checking for program /apps/cent7/xalt/bin/autoreconf...not found Checking for program /apps/cent7/subversion/1.9.7/bin/autoreconf...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/autoreconf...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/autoreconf...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/autoreconf...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/autoreconf...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/autoreconf...not found Checking for program /apps/cent7/gcc/5.2.0/bin/autoreconf...not found Checking for program ./autoreconf...not found Checking for program /home/mpovolot/bin/autoreconf...not found Checking for program /usr/pbs/bin/autoreconf...found All intermediate test results are stored in /tmp/petsc-ugU6A3/config.programs Executing: ['/usr/pbs/bin/autoreconf'] autoreconf test successful! Checking for program /apps/cent7/xalt/bin/libtoolize...not found Checking for program /apps/cent7/subversion/1.9.7/bin/libtoolize...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/libtoolize...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/libtoolize...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/libtoolize...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/libtoolize...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/libtoolize...not found Checking for program /apps/cent7/gcc/5.2.0/bin/libtoolize...not found Checking for program ./libtoolize...not found Checking for program /home/mpovolot/bin/libtoolize...not found Checking for program /usr/pbs/bin/libtoolize...found ================================================================================ TEST configurePrograms from config.programs(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/programs.py:71) TESTING: configurePrograms from config.programs(config/BuildSystem/config/programs.py:71) Check for the programs needed to build and run PETSc Checking for program /apps/cent7/xalt/bin/sh...not found Checking for program /apps/cent7/subversion/1.9.7/bin/sh...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/sh...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/sh...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/sh...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/sh...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/sh...not found Checking for program /apps/cent7/gcc/5.2.0/bin/sh...not found Checking for program ./sh...not found Checking for program /home/mpovolot/bin/sh...not found Checking for program /usr/pbs/bin/sh...found Defined make macro "SHELL" to "/usr/pbs/bin/sh" Checking for program /apps/cent7/xalt/bin/sed...not found Checking for program /apps/cent7/subversion/1.9.7/bin/sed...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/sed...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/sed...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/sed...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/sed...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/sed...not found Checking for program /apps/cent7/gcc/5.2.0/bin/sed...not found Checking for program ./sed...not found Checking for program /home/mpovolot/bin/sed...not found Checking for program /usr/pbs/bin/sed...found Defined make macro "SED" to "/usr/pbs/bin/sed" Executing: /usr/pbs/bin/sed -i s/sed/sd/g "/tmp/petsc-ugU6A3/config.programs/sed1" Adding SEDINPLACE cmd: /usr/pbs/bin/sed -i Defined make macro "SEDINPLACE" to "/usr/pbs/bin/sed -i" Checking for program /apps/cent7/xalt/bin/mv...not found Checking for program /apps/cent7/subversion/1.9.7/bin/mv...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/mv...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/mv...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/mv...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/mv...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/mv...not found Checking for program /apps/cent7/gcc/5.2.0/bin/mv...not found Checking for program ./mv...not found Checking for program /home/mpovolot/bin/mv...not found Checking for program /usr/pbs/bin/mv...found Defined make macro "MV" to "/usr/pbs/bin/mv" Checking for program /apps/cent7/xalt/bin/cp...not found Checking for program /apps/cent7/subversion/1.9.7/bin/cp...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/cp...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/cp...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/cp...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/cp...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/cp...not found Checking for program /apps/cent7/gcc/5.2.0/bin/cp...not found Checking for program ./cp...not found Checking for program /home/mpovolot/bin/cp...not found Checking for program /usr/pbs/bin/cp...found Defined make macro "CP" to "/usr/pbs/bin/cp" Checking for program /apps/cent7/xalt/bin/grep...not found Checking for program /apps/cent7/subversion/1.9.7/bin/grep...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/grep...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/grep...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/grep...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/grep...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/grep...not found Checking for program /apps/cent7/gcc/5.2.0/bin/grep...not found Checking for program ./grep...not found Checking for program /home/mpovolot/bin/grep...not found Checking for program /usr/pbs/bin/grep...found Defined make macro "GREP" to "/usr/pbs/bin/grep" Checking for program /apps/cent7/xalt/bin/rm...not found Checking for program /apps/cent7/subversion/1.9.7/bin/rm...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/rm...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/rm...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/rm...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/rm...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/rm...not found Checking for program /apps/cent7/gcc/5.2.0/bin/rm...not found Checking for program ./rm...not found Checking for program /home/mpovolot/bin/rm...not found Checking for program /usr/pbs/bin/rm...found Defined make macro "RM" to "/usr/pbs/bin/rm -f" Checking for program /apps/cent7/xalt/bin/diff...not found Checking for program /apps/cent7/subversion/1.9.7/bin/diff...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/diff...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/diff...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/diff...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/diff...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/diff...not found Checking for program /apps/cent7/gcc/5.2.0/bin/diff...not found Checking for program ./diff...not found Checking for program /home/mpovolot/bin/diff...not found Checking for program /usr/pbs/bin/diff...found Executing: "/usr/pbs/bin/diff" -w "/tmp/petsc-ugU6A3/config.programs/diff1" "/tmp/petsc-ugU6A3/config.programs/diff2" Defined make macro "DIFF" to "/usr/pbs/bin/diff -w" Checking for program /usr/ucb/ps...not found Checking for program /usr/usb/ps...not found Checking for program /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/lib/petsc/bin/win32fe/ps...not found Checking for program /apps/cent7/xalt/bin/gzip...not found Checking for program /apps/cent7/subversion/1.9.7/bin/gzip...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/gzip...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/gzip...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/gzip...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/gzip...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/gzip...not found Checking for program /apps/cent7/gcc/5.2.0/bin/gzip...not found Checking for program ./gzip...not found Checking for program /home/mpovolot/bin/gzip...not found Checking for program /usr/pbs/bin/gzip...found Defined make macro "GZIP" to "/usr/pbs/bin/gzip" Defined "HAVE_GZIP" to "1" Defined make macro "PYTHON" to "/usr/pbs/bin/python" Checking for program /apps/cent7/xalt/bin/m4...not found Checking for program /apps/cent7/subversion/1.9.7/bin/m4...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/m4...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/m4...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/m4...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/m4...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/m4...not found Checking for program /apps/cent7/gcc/5.2.0/bin/m4...not found Checking for program ./m4...not found Checking for program /home/mpovolot/bin/m4...not found Checking for program /usr/pbs/bin/m4...found Defined make macro "M4" to "/usr/pbs/bin/m4" ================================================================================ TEST configureMake from config.packages.make(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/make.py:85) TESTING: configureMake from config.packages.make(config/BuildSystem/config/packages/make.py:85) Check Guesses for GNU make Executing: gmake --version stdout: GNU Make 3.82 Built for x86_64-redhat-linux-gnu Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Checking for program /apps/cent7/xalt/bin/gmake...not found Checking for program /apps/cent7/subversion/1.9.7/bin/gmake...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/gmake...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/gmake...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/gmake...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/gmake...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/gmake...not found Checking for program /apps/cent7/gcc/5.2.0/bin/gmake...not found Checking for program ./gmake...not found Checking for program /home/mpovolot/bin/gmake...not found Checking for program /usr/pbs/bin/gmake...found Defined make macro "MAKE" to "/usr/pbs/bin/gmake" ================================================================================ TEST setupGNUMake from config.packages.make(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/make.py:113) TESTING: setupGNUMake from config.packages.make(config/BuildSystem/config/packages/make.py:113) Setup other GNU make stuff 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} Defined make macro "OMAKE_PRINTDIR " to "/usr/pbs/bin/gmake --print-directory" Defined make macro "OMAKE" to "/usr/pbs/bin/gmake --no-print-directory" Defined make macro "MAKE_PAR_OUT_FLG" to "" ================================================================================ TEST configureMakeNP from config.packages.make(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/make.py:161) TESTING: configureMakeNP from config.packages.make(config/BuildSystem/config/packages/make.py:161) check no of cores on the build machine [perhaps to do make '-j ncores'] module multiprocessing found 24 cores: using make_np = 18 Defined make macro "MAKE_NP" to "18" Defined make macro "MAKE_TEST_NP" to "18" Defined make macro "MAKE_LOAD" to "36.0" Defined make macro "NPMAX" to "24" ================================================================================ TEST alternateConfigureLibrary from config.packages.OpenMPI(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.OpenMPI(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default Executing: uname -s stdout: Linux Executing: uname -s stdout: Linux ================================================================================ TEST alternateConfigureLibrary from config.packages.MPICH(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.MPICH(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.MPI(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/MPI.py:326) TESTING: alternateConfigureLibrary from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:326) Setup MPIUNI, our uniprocessor version of MPI Defined "HAVE_MPIUNI" to "1" Defined make macro "MPI_IS_MPIUNI" to "1" Defined make macro "MPIEXEC" to "${PETSC_DIR}/lib/petsc/bin/petsc-mpiexec.uni" Defined "HAVE_MPI_COMM_F2C" to "1" Defined "HAVE_MPI_COMM_C2F" to "1" Defined "HAVE_MPI_FINT" to "1" Defined "HAVE_MPI_IN_PLACE" to "1" Defined "HAVE_MPI_TYPE_DUP" to "1" Defined "HAVE_MPI_TYPE_GET_ENVELOPE" to "1" Defined "MPI_Type_create_struct(count,lens,displs,types,newtype)" to "MPI_Type_struct((count),(lens),(displs),(types),(newtype))" Defined "MPI_Comm_create_errhandler(p_err_fun,p_errhandler)" to "MPI_Errhandler_create((p_err_fun),(p_errhandler))" Defined "MPI_Comm_set_errhandler(comm,p_errhandler)" to "MPI_Errhandler_set((comm),(p_errhandler))" ================================================================================ TEST alternateConfigureLibrary from config.packages.yaml(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.yaml(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST configureLibrary from config.packages.valgrind(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:763) TESTING: configureLibrary from config.packages.valgrind(config/BuildSystem/config/package.py:763) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional valgrind Not checking for library in User specified root directory VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [] [] No functions to check for in library [] [] Checking for headers User specified root directory VALGRIND: ['/apps/brown/valgrind/3.13.0_gcc-4.8.5/include'] ================================================================================ TEST checkInclude from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 ['/apps/brown/valgrind/3.13.0_gcc-4.8.5/include'] Checking include with compiler flags var CPPFLAGS ['/apps/brown/valgrind/3.13.0_gcc-4.8.5/include'] Executing: g++ -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers -std=c++11 -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include /tmp/petsc-ugU6A3/config.headers/conftest.cc Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['valgrind/valgrind.h'] in ['/apps/brown/valgrind/3.13.0_gcc-4.8.5/include'] All intermediate test results are stored in /tmp/petsc-ugU6A3/config.packages.valgrind Executing: gcc -c -o /tmp/petsc-ugU6A3/config.packages.valgrind/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -fopenmp -fPIC -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include /tmp/petsc-ugU6A3/config.packages.valgrind/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { RUNNING_ON_VALGRIND; ; return 0; } ================================================================================ TEST alternateConfigureLibrary from config.packages.ssl(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ssl(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.sprng(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.sprng(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default Not a clone of PETSc or no Fortran compiler or fortran-bindings disabled, don't need Sowing ================================================================================ TEST alternateConfigureLibrary from config.packages.slepc(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/slepc.py:88) TESTING: alternateConfigureLibrary from config.packages.slepc(config/BuildSystem/config/packages/slepc.py:88) Defined make rule "slepc-build" with dependencies "" and code [] Defined make rule "slepc-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.revolve(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.revolve(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.radau5(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.radau5(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pami(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.pami(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.opengles(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.opengles(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.opencl(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.opencl(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.muparser(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.muparser(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default Defined "PYTHON_EXE" to ""/usr/pbs/bin/python"" Executing: /usr/pbs/bin/python -c "import Cython" Executing: /usr/pbs/bin/python -c "import numpy" ================================================================================ TEST alternateConfigureLibrary from config.packages.petsc4py(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/petsc4py.py:96) TESTING: alternateConfigureLibrary from config.packages.petsc4py(config/BuildSystem/config/packages/petsc4py.py:96) Defined make rule "petsc4py-build" with dependencies "" and code [] Defined make rule "petsc4py-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.mpi4py(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/mpi4py.py:73) TESTING: alternateConfigureLibrary from config.packages.mpi4py(config/BuildSystem/config/packages/mpi4py.py:73) Defined make rule "mpi4py-build" with dependencies "" and code [] Defined make rule "mpi4py-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.mpe(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.mpe(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.memkind(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.memkind(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.libmesh(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/libmesh.py:76) TESTING: alternateConfigureLibrary from config.packages.libmesh(config/BuildSystem/config/packages/libmesh.py:76) Defined make rule "libmesh-build" with dependencies "" and code [] Defined make rule "libmesh-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.moose(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.moose(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.libjpeg(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.libjpeg(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.libceed(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.libceed(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default Not a clone of PETSc, don't need Lgrind ================================================================================ TEST alternateConfigureLibrary from config.packages.gmp(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.gmp(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mpfr(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.mpfr(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.giflib(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.giflib(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.cuda(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.cuda(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ctetgen(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ctetgen(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.concurrencykit(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.concurrencykit(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST locateC2html from config.packages.c2html(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 /apps/cent7/xalt/bin/c2html...not found Checking for program /apps/cent7/subversion/1.9.7/bin/c2html...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/c2html...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/c2html...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/c2html...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/c2html...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/c2html...not found Checking for program /apps/cent7/gcc/5.2.0/bin/c2html...not found Checking for program ./c2html...not found Checking for program /home/mpovolot/bin/c2html...not found Checking for program /usr/pbs/bin/c2html...not found Checking for program /bin/c2html...not found Checking for program /sw/bin/c2html...not found Checking for program /usr/bin/c2html...not found Checking for program /usr/local/bin/c2html...not found Checking for program /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/lib/petsc/bin/win32fe/c2html...not found ================================================================================ TEST alternateConfigureLibrary from config.packages.boost(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.boost(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.silo(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.silo(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Random123(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Random123(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.PARTY(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.PARTY(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Matlab(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Matlab(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.MatlabEngine(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.MatlabEngine(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Mathematica(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Mathematica(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.hwloc(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.hwloc(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST checkDependencies from config.packages.pthread(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:738) TESTING: checkDependencies from config.packages.pthread(config/BuildSystem/config/package.py:738) ================================================================================ TEST configureLibrary from config.packages.pthread(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [] [] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char pthread_create(); static void _check_pthread_create() { pthread_create(); } #ifdef __cplusplus } #endif int main() { _check_pthread_create();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -lstdc++ -ldl No functions to check for in library [] [] Checking for headers Compiler specific search PTHREAD: [] ================================================================================ TEST checkInclude from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 [] Checking include with compiler flags var CPPFLAGS [] Executing: g++ -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers -std=c++11 /tmp/petsc-ugU6A3/config.headers/conftest.cc Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['pthread.h'] in [] All intermediate test results are stored in /tmp/petsc-ugU6A3/config.packages.pthread Executing: gcc -c -o /tmp/petsc-ugU6A3/config.packages.pthread/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -fopenmp -fPIC /tmp/petsc-ugU6A3/config.packages.pthread/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { pthread_barrier_t *a; ; return 0; } Defined "HAVE_PTHREAD_BARRIER_T" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/config.packages.pthread/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -fopenmp -fPIC /tmp/petsc-ugU6A3/config.packages.pthread/conftest.c Successful compile: 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: gcc -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.headers /tmp/petsc-ugU6A3/config.packages.pthread/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSCTL_H" to "1" ================================================================================ TEST checkSharedLibrary from config.packages.pthread(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:817) TESTING: checkSharedLibrary from config.packages.pthread(config/BuildSystem/config/package.py:817) By default we don't care about checking if the library is shared ================================================================================ TEST alternateConfigureLibrary from config.packages.openmp(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.openmp(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.viennacl(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.viennacl(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.opengl(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.opengl(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.glut(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.glut(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.X(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.X(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.GLVis(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.GLVis(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ColPack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ColPack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.CoDiPack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.CoDiPack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.adblaslapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.adblaslapack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ADOLC(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ADOLC(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.szlib(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.szlib(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.zlib(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.zlib(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST locateCMake from config.packages.cmake(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 /apps/cent7/xalt/bin/cmake...not found Checking for program /apps/cent7/subversion/1.9.7/bin/cmake...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/cmake...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/cmake...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/cmake...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/cmake...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/cmake...not found Checking for program /apps/cent7/gcc/5.2.0/bin/cmake...not found Checking for program ./cmake...not found Checking for program /home/mpovolot/bin/cmake...not found Checking for program /usr/pbs/bin/cmake...found Defined make macro "CMAKE" to "/usr/pbs/bin/cmake" Looking for default CTest executable Checking for program /apps/cent7/xalt/bin/ctest...not found Checking for program /apps/cent7/subversion/1.9.7/bin/ctest...not found Checking for program /apps/cent7/grace/5.1.25_gcc-4.8.5/grace/bin/ctest...not found Checking for program /apps/cent7/totalview/toolworks/totalview.2018.2.6/bin/ctest...not found Checking for program /apps/brown/valgrind/3.13.0_gcc-4.8.5/bin/ctest...not found Checking for program /depot/kildisha/apps/brown/vtk/8.0.1_gcc-5.2.0_openmpi-2.1.6/bin/ctest...not found Checking for program /apps/brown/openmpi.20190215/2.1.6_gcc-5.2.0/bin/ctest...not found Checking for program /apps/cent7/gcc/5.2.0/bin/ctest...not found Checking for program ./ctest...not found Checking for program /home/mpovolot/bin/ctest...not found Checking for program /usr/pbs/bin/ctest...found Defined make macro "CTEST" to "/usr/pbs/bin/ctest" ================================================================================ TEST alternateConfigureLibrary from config.packages.googletest(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.googletest(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.unittestcpp(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.unittestcpp(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.eigen(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.eigen(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.tetgen(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.tetgen(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.tchem(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.tchem(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.saws(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.saws(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.libpng(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.libpng(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.combblas(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.combblas(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Triangle(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Triangle(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.PTScotch(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.PTScotch(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.metis(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.metis(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pragmatic(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.pragmatic(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.parmetis(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.parmetis(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Zoltan(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Zoltan(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Chaco(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Chaco(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.hdf5(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.hdf5(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.med(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.med(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.cgns(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.cgns(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ascem-io(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ascem-io(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pflotran(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.pflotran(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.alquimia(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.alquimia(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.SAMRAI(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.SAMRAI(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ADIOS2(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ADIOS2(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pnetcdf(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.pnetcdf(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.netcdf(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.netcdf(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.exodusii(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.exodusii(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ADIOS(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ADIOS(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.openblas(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.openblas(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.fblaslapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.fblaslapack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.f2cblaslapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.f2cblaslapack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST checkDependencies from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:738) TESTING: checkDependencies from config.packages.BlasLapack(config/BuildSystem/config/package.py:738) ================================================================================ TEST configureLibrary from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:356) TESTING: configureLibrary from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:356) ================================================================================ Checking for a functional BLAS and LAPACK in User specified BLAS/LAPACK library ================================================================================ TEST checkLib from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:112) TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:112) Checking for BLAS and LAPACK symbols Checking for functions [ddot_] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core'] ['libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char ddot_(); static void _check_ddot_() { ddot_(); } #ifdef __cplusplus } #endif int main() { _check_ddot_();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_GNU_THREAD" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Checking for functions [dgetrs_] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core'] ['libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char dgetrs_(); static void _check_dgetrs_() { dgetrs_(); } #ifdef __cplusplus } #endif int main() { _check_dgetrs_();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_GNU_THREAD" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Checking for functions [dgeev_] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core'] ['libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char dgeev_(); static void _check_dgeev_() { dgeev_(); } #ifdef __cplusplus } #endif int main() { _check_dgeev_();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_GNU_THREAD" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Found Fortran mangling on BLAS/LAPACK which is underscore Defined "BLASLAPACK_UNDERSCORE" to "1" ================================================================================ TEST checkESSL from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:436) TESTING: checkESSL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:436) Check for the IBM ESSL library Checking for functions [iessl] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] [] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char iessl(); static void _check_iessl() { iessl(); } #ifdef __cplusplus } #endif int main() { _check_iessl();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.o: In function `_check_iessl': conftest.cc:(.text+0x5): undefined reference to `iessl' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST checkPESSL from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:477) TESTING: checkPESSL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:477) Check for the IBM PESSL library - and error out - if used instead of ESSL Checking for functions [ipessl] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] [] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char ipessl(); static void _check_ipessl() { ipessl(); } #ifdef __cplusplus } #endif int main() { _check_ipessl();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.o: In function `_check_ipessl': conftest.cc:(.text+0x5): undefined reference to `ipessl' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status ================================================================================ TEST checkMKL from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:444) TESTING: checkMKL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:444) Check for Intel MKL library Defined "HAVE_MKL" to "1" All intermediate test results are stored in /tmp/petsc-ugU6A3/config.packages.BlasLapack Executing: gcc -c -o /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -fopenmp -fPIC /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest.c:3:24: fatal error: mkl_spblas.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include "mkl_spblas.h" int main() { ; return 0; } MKL include path not automatically picked up by compiler. Trying to find mkl_spblas.h... Checking for functions [mkl_set_num_threads] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] [] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char mkl_set_num_threads(); static void _check_mkl_set_num_threads() { mkl_set_num_threads(); } #ifdef __cplusplus } #endif int main() { _check_mkl_set_num_threads();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_GNU_THREAD" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBSTDC__" to "1" Defined "HAVE_LIBDL" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGOMP" to "1" Defined "HAVE_LIBGCC_S" to "1" Defined "HAVE_LIBQUADMATH" to "1" Defined "HAVE_LIBPTHREAD" to "1" ================================================================================ TEST checkMissing from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:502) TESTING: checkMissing from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:502) Check for missing LAPACK routines Checking for functions [dgeev_ dgels_ dgelss_ dgeqrf_ dgerfs_ dgesv_ dgesvd_ dgetrf_ dgetri_ dgetrs_ dgges_ dhgeqz_ dhseqr_ dormqr_ dpotrf_ dpotri_ dpotrs_ dpttrf_ dpttrs_ dstebz_ dstein_ dsteqr_ dsyev_ dsyevx_ dsygvx_ dsytrf_ dsytri_ dsytrs_ dtgsen_ dtrsen_ dtrtrs_ dorgqr_] in library ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core'] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char dgeev_(); static void _check_dgeev_() { dgeev_(); } char dgels_(); static void _check_dgels_() { dgels_(); } char dgelss_(); static void _check_dgelss_() { dgelss_(); } char dgeqrf_(); static void _check_dgeqrf_() { dgeqrf_(); } char dgerfs_(); static void _check_dgerfs_() { dgerfs_(); } char dgesv_(); static void _check_dgesv_() { dgesv_(); } char dgesvd_(); static void _check_dgesvd_() { dgesvd_(); } char dgetrf_(); static void _check_dgetrf_() { dgetrf_(); } char dgetri_(); static void _check_dgetri_() { dgetri_(); } char dgetrs_(); static void _check_dgetrs_() { dgetrs_(); } char dgges_(); static void _check_dgges_() { dgges_(); } char dhgeqz_(); static void _check_dhgeqz_() { dhgeqz_(); } char dhseqr_(); static void _check_dhseqr_() { dhseqr_(); } char dormqr_(); static void _check_dormqr_() { dormqr_(); } char dpotrf_(); static void _check_dpotrf_() { dpotrf_(); } char dpotri_(); static void _check_dpotri_() { dpotri_(); } char dpotrs_(); static void _check_dpotrs_() { dpotrs_(); } char dpttrf_(); static void _check_dpttrf_() { dpttrf_(); } char dpttrs_(); static void _check_dpttrs_() { dpttrs_(); } char dstebz_(); static void _check_dstebz_() { dstebz_(); } char dstein_(); static void _check_dstein_() { dstein_(); } char dsteqr_(); static void _check_dsteqr_() { dsteqr_(); } char dsyev_(); static void _check_dsyev_() { dsyev_(); } char dsyevx_(); static void _check_dsyevx_() { dsyevx_(); } char dsygvx_(); static void _check_dsygvx_() { dsygvx_(); } char dsytrf_(); static void _check_dsytrf_() { dsytrf_(); } char dsytri_(); static void _check_dsytri_() { dsytri_(); } char dsytrs_(); static void _check_dsytrs_() { dsytrs_(); } char dtgsen_(); static void _check_dtgsen_() { dtgsen_(); } char dtrsen_(); static void _check_dtrsen_() { dtrsen_(); } char dtrtrs_(); static void _check_dtrtrs_() { dtrtrs_(); } char dorgqr_(); static void _check_dorgqr_() { dorgqr_(); } #ifdef __cplusplus } #endif int main() { _check_dgeev_(); _check_dgels_(); _check_dgelss_(); _check_dgeqrf_(); _check_dgerfs_(); _check_dgesv_(); _check_dgesvd_(); _check_dgetrf_(); _check_dgetri_(); _check_dgetrs_(); _check_dgges_(); _check_dhgeqz_(); _check_dhseqr_(); _check_dormqr_(); _check_dpotrf_(); _check_dpotri_(); _check_dpotrs_(); _check_dpttrf_(); _check_dpttrs_(); _check_dstebz_(); _check_dstein_(); _check_dsteqr_(); _check_dsyev_(); _check_dsyevx_(); _check_dsygvx_(); _check_dsytrf_(); _check_dsytri_(); _check_dsytrs_(); _check_dtgsen_(); _check_dtrsen_(); _check_dtrtrs_(); _check_dorgqr_();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_GNU_THREAD" to "1" Defined "HAVE_LIBMKL_CORE" to "1" ================================================================================ TEST checklsame from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:520) TESTING: checklsame from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:520) 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 ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] [] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char lsame_(); static void _check_lsame_() { lsame_(); } #ifdef __cplusplus } #endif int main() { _check_lsame_();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBMKL_INTEL_LP64" to "1" Defined "HAVE_LIBMKL_GNU_THREAD" to "1" Defined "HAVE_LIBMKL_CORE" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBSTDC__" to "1" Defined "HAVE_LIBDL" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGFORTRAN" to "1" Defined "HAVE_LIBM" to "1" Defined "HAVE_LIBGOMP" to "1" Defined "HAVE_LIBGCC_S" to "1" Defined "HAVE_LIBQUADMATH" to "1" Defined "HAVE_LIBPTHREAD" to "1" ================================================================================ TEST checkRuntimeIssues from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/BlasLapack.py:579) TESTING: checkRuntimeIssues from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:579) Determines if BLAS/LAPACK routines use 32 or 64 bit integers Checking if BLAS/LAPACK routines use 32 or 64 bit integersExecuting: gcc -c -o /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -fopenmp -fPIC /tmp/petsc-ugU6A3/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 double ddot_(const int*,const double*,const int *,const double*,const int*); double x1mkl[4] = {3.0,5.0,7.0,9.0}; int one1mkl = 1,nmkl = 2; double dotresultmkl = 0; dotresultmkl = ddot_(&nmkl,x1mkl,&one1mkl,x1mkl,&one1mkl); fprintf(output, "-known-64-bit-blas-indices=%d",dotresultmkl != 34);; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest Executing: /tmp/petsc-ugU6A3/config.packages.BlasLapack/conftest Checking for 64 bit blas indices: result 0 ================================================================================ TEST checkSharedLibrary from config.packages.BlasLapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:817) TESTING: checkSharedLibrary from config.packages.BlasLapack(config/BuildSystem/config/package.py:817) By default we don't care about checking if the library is shared ================================================================================ TEST alternateConfigureLibrary from config.packages.sundials(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.sundials(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.spai(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.spai(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.pARMS(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.pARMS(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.p4est(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.p4est(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST checkDependencies from config.packages.mkl_sparse_optimize(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:738) TESTING: checkDependencies from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:738) ================================================================================ TEST configureLibrary from config.packages.mkl_sparse_optimize(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/mkl_sparse_optimize.py:65) TESTING: configureLibrary from config.packages.mkl_sparse_optimize(config/BuildSystem/config/packages/mkl_sparse_optimize.py:65) ================================================================================== Checking for a functional mkl_sparse_optimize Checking for library in Compiler specific search MKL_SPARSE_OPTIMIZE: [] ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [mkl_sparse_optimize mkl_sparse_s_create_bsr] in library [] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char mkl_sparse_optimize(); static void _check_mkl_sparse_optimize() { mkl_sparse_optimize(); } char mkl_sparse_s_create_bsr(); static void _check_mkl_sparse_s_create_bsr() { mkl_sparse_s_create_bsr(); } #ifdef __cplusplus } #endif int main() { _check_mkl_sparse_optimize(); _check_mkl_sparse_s_create_bsr();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl No functions to check for in library [] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Checking for headers Compiler specific search MKL_SPARSE_OPTIMIZE: [] ================================================================================ TEST checkInclude from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 ['mkl.h', 'mkl_spblas.h'] in [] Checking include with compiler flags var CPPFLAGS [] Executing: g++ -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers -std=c++11 /tmp/petsc-ugU6A3/config.headers/conftest.cc Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 extern "C" { } # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.cc:3:17: fatal error: mkl.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.cc:3:17: fatal error: mkl.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.cc:3:17: fatal error: mkl.h: No such file or directorycompilation terminated.: ================================================================================ TEST checkSharedLibrary from config.packages.mkl_sparse_optimize(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:817) TESTING: checkSharedLibrary from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:817) By default we don't care about checking if the library is shared ================================================================================ TEST checkDependencies from config.packages.mkl_sparse(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:738) TESTING: checkDependencies from config.packages.mkl_sparse(config/BuildSystem/config/package.py:738) ================================================================================ TEST configureLibrary from config.packages.mkl_sparse(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:763) TESTING: configureLibrary from config.packages.mkl_sparse(config/BuildSystem/config/package.py:763) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional mkl_sparse Checking for library in Compiler specific search MKL_SPARSE: [] ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [mkl_dcsrmv] in library [] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char mkl_dcsrmv(); static void _check_mkl_dcsrmv() { mkl_dcsrmv(); } #ifdef __cplusplus } #endif int main() { _check_mkl_dcsrmv();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl No functions to check for in library [] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Checking for headers Compiler specific search MKL_SPARSE: [] ================================================================================ TEST checkInclude from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 ['mkl.h', 'mkl_spblas.h'] in [] Checking include with compiler flags var CPPFLAGS [] Executing: g++ -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers -std=c++11 /tmp/petsc-ugU6A3/config.headers/conftest.cc Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" # 1 "/tmp/petsc-ugU6A3/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" 2 # 1 "/tmp/petsc-ugU6A3/config.headers/conffix.h" 1 extern "C" { } # 3 "/tmp/petsc-ugU6A3/config.headers/conftest.cc" 2 stderr: /tmp/petsc-ugU6A3/config.headers/conftest.cc:3:17: fatal error: mkl.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-ugU6A3/config.headers/conftest.cc:3:17: fatal error: mkl.h: No such file or directory compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-ugU6A3/config.headers/conftest.cc:3:17: fatal error: mkl.h: No such file or directorycompilation terminated.: ================================================================================ TEST checkSharedLibrary from config.packages.mkl_sparse(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:817) TESTING: checkSharedLibrary from config.packages.mkl_sparse(config/BuildSystem/config/package.py:817) By default we don't care about checking if the library is shared ================================================================================ TEST alternateConfigureLibrary from config.packages.mkl_cpardiso(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.mkl_cpardiso(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.fftw(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.fftw(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.elemental(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.elemental(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.ml(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.ml(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mkl_pardiso(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.mkl_pardiso(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.SuperLU_DIST(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.SuperLU(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.SuperLU(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.SuiteSparse(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.SuiteSparse(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.PaStiX(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.PaStiX(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.scalapack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.scalapack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.strumpack(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.strumpack(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST checkDependencies from config.packages.MUMPS(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:738) TESTING: checkDependencies from config.packages.MUMPS(config/BuildSystem/config/package.py:738) ================================================================================ TEST configureLibrary from config.packages.MUMPS(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:763) TESTING: configureLibrary from config.packages.MUMPS(config/BuildSystem/config/package.py:763) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional MUMPS Looking for MUMPS at git.mumps, hg.mumps or a directory starting with ['petsc-pkg-mumps', 'MUMPS'] Found a copy of MUMPS in git.mumps Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Executing: ['git', 'cat-file', '-e', 'v5.1.2-p2^{commit}'] Executing: ['git', 'rev-parse', 'v5.1.2-p2'] stdout: 5fe5b9e56f78de2b7b1c199688f6c73ff3ff4c2d Executing: ['git', '-c', 'user.name=petsc-configure', '-c', 'user.email=petsc@configure', 'stash'] stdout: No local changes to save Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing Makefile.inc Removing pkg.gitcommit Executing: ['git', 'checkout', '-f', '5fe5b9e56f78de2b7b1c199688f6c73ff3ff4c2d'] Have to rebuild MUMPS, /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/Makefile.inc != /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/petsc/conf/pkg.conf.mumps Executing: make clean stdout: make[1]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd src; make clean) make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' /bin/rm -f *.o *.mod make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' (cd examples; make clean) make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/examples' /bin/rm -f *.o [sdcz]simpletest c_example multiple_arithmetics_example make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/examples' (cd ./lib; /bin/rm -f *.a) (cd libseq; make clean) make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' /bin/rm -f *.o *.a make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' if [ "./PORD/lib/" != "" ] ; then \ cd ./PORD/lib/; make realclean; \ fi; make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' rm -f *.o libpord.a make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' make[1]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' =============================================================================== Compiling Mumps; this may take several minutes =============================================================================== Executing: make alllib stdout: make[1]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=c mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' gfortran -fopenmp -fPIC -c mpi.f -o mpi.o gcc -fopenmp -fPIC -DAdd_ -I. -c mpic.c -o mpic.o gcc -fopenmp -fPIC -DAdd_ -I. -c elapse.c -o elapse.o /usr/pbs/bin/ar cr libmpiseq.a mpi.o mpic.o elapse.o /usr/pbs/bin/ranlib libmpiseq.a make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' if [ "./PORD/lib/" != "" ] ; then \ cd ./PORD/lib/; \ make CC="gcc" CFLAGS="-fopenmp -fPIC" AR="/usr/pbs/bin/ar cr " RANLIB="/usr/pbs/bin/ranlib" OUTC="-o " LIBEXT=.a; \ fi; make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' gcc -I../include -fopenmp -fPIC -c graph.c -o graph.o gcc -I../include -fopenmp -fPIC -c gbipart.c -o gbipart.o gcc -I../include -fopenmp -fPIC -c gbisect.c -o gbisect.o gcc -I../include -fopenmp -fPIC -c ddcreate.c -o ddcreate.o gcc -I../include -fopenmp -fPIC -c ddbisect.c -o ddbisect.o gcc -I../include -fopenmp -fPIC -c nestdiss.c -o nestdiss.o gcc -I../include -fopenmp -fPIC -c multisector.c -o multisector.o gcc -I../include -fopenmp -fPIC -c gelim.c -o gelim.o gcc -I../include -fopenmp -fPIC -c bucket.c -o bucket.o gcc -I../include -fopenmp -fPIC -c tree.c -o tree.o gcc -I../include -fopenmp -fPIC -c symbfac.c -o symbfac.o gcc -I../include -fopenmp -fPIC -c interface.c -o interface.o gcc -I../include -fopenmp -fPIC -c sort.c -o sort.o gcc -I../include -fopenmp -fPIC -c minpriority.c -o minpriority.o /usr/pbs/bin/ar cr libpord.a graph.o gbipart.o gbisect.o ddcreate.o ddbisect.o nestdiss.o multisector.o gelim.o bucket.o tree.o symbfac.o interface.o sort.o minpriority.o /usr/pbs/bin/ranlib libpord.a make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' if [ "./PORD/lib/" != "" ] ; then \ cp ./PORD/lib//libpord.a lib/libpord.a; \ fi; (cd src ; make c) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=c mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c lr_common.F -o lr_common.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c double_linked_list.F -o double_linked_list.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_omp_m.F -o ana_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_orderings_wrappers_m.F -o ana_orderings_wrappers_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_memory_mod.F -o mumps_memory_mod.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_static_mapping.F -o mumps_static_mapping.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_sol_es.F -o mumps_sol_es.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_future_niv2_mod.F -o fac_future_niv2_mod.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_comm_ibcast.F -o mumps_comm_ibcast.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_ooc_common.F -o mumps_ooc_common.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c omp_tps_common_m.F -o omp_tps_common_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_asm_build_sort_index_m.F -o fac_asm_build_sort_index_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_asm_build_sort_index_ELT_m.F -o fac_asm_build_sort_index_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_l0_omp_m.F -o mumps_l0_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c front_data_mgt_m.F -o front_data_mgt_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_maprow_data_m.F -o fac_maprow_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_descband_data_m.F -o fac_descband_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_ibct_data_m.F -o fac_ibct_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_orderings.F -o ana_orderings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_AMDMF.F -o ana_AMDMF.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c bcast_errors.F -o bcast_errors.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c estim_flops.F -o estim_flops.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_type_size.F -o mumps_type_size.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_type2_blocking.F -o mumps_type2_blocking.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_version.F -o mumps_version.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c tools_common.F -o tools_common.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_print_defined.F -o mumps_print_defined.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_common.c -o mumps_common.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_pord.c -o mumps_pord.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_metis.c -o mumps_metis.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_metis64.c -o mumps_metis64.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_metis_int.c -o mumps_metis_int.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_scotch.c -o mumps_scotch.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_scotch64.c -o mumps_scotch64.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_scotch_int.c -o mumps_scotch_int.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_size.c -o mumps_size.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io.c -o mumps_io.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io_basic.c -o mumps_io_basic.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io_thread.c -o mumps_io_thread.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io_err.c -o mumps_io_err.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_set_ordering.F -o ana_set_ordering.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_numa.c -o mumps_numa.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_thread.c -o mumps_thread.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_save_restore_C.c -o mumps_save_restore_C.o /usr/pbs/bin/ar cr ../lib/libmumps_common.a lr_common.o ana_omp_m.o ana_orderings_wrappers_m.o mumps_memory_mod.o mumps_static_mapping.o mumps_sol_es.o fac_future_niv2_mod.o mumps_comm_ibcast.o mumps_ooc_common.o double_linked_list.o fac_asm_build_sort_index_m.o fac_asm_build_sort_index_ELT_m.o omp_tps_common_m.o mumps_l0_omp_m.o front_data_mgt_m.o fac_maprow_data_m.o fac_descband_data_m.o fac_ibct_data_m.o ana_orderings.o ana_AMDMF.o bcast_errors.o estim_flops.o mumps_type_size.o mumps_type2_blocking.o mumps_version.o tools_common.o mumps_print_defined.o mumps_common.o mumps_pord.o mumps_metis.o mumps_metis64.o mumps_metis_int.o mumps_scotch.o mumps_scotch64.o mumps_scotch_int.o mumps_size.o mumps_io.o mumps_io_basic.o mumps_io_thread.o mumps_io_err.o ana_set_ordering.o mumps_numa.o mumps_thread.o mumps_save_restore_C.o /usr/pbs/bin/ranlib ../lib/libmumps_common.a gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_struc_def.F -o cmumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_aux_par.F -o cana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c clr_type.F -o clr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_lr_data_m.F -o cmumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c clr_stats.F -o clr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c clr_core.F -o clr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_lr.F -o cana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c comp_tps_m.F -o comp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_comm_buffer.F -o cmumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_load.F -o cmumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm_master_m.F -o cfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm_master_ELT_m.F -o cfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_ooc_buffer.F -o cmumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_ooc.F -o cmumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cstatic_ptr_m.F -o cstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_lr.F -o cfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_aux.F -o cfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LU_type1.F -o cfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LDLT_type1.F -o cfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_omp_m.F -o cfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_type2_aux.F -o cfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LU_type2.F -o cfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LDLT_type2.F -o cfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_par_m.F -o cfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_save_restore_files.F -o cmumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_save_restore.F -o cmumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cini_driver.F -o cini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_driver.F -o cana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_driver.F -o cfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_driver.F -o csol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cend_driver.F -o cend_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_aux_ELT.F -o cana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_aux.F -o cana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_dist_m.F -o cana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_LDLT_preprocess.F -o cana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_reordertree.F -o cana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c carrowheads.F -o carrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cbcast_int.F -o cbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm_ELT.F -o cfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm.F -o cfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_b.F -o cfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_distrib_distentry.F -o cfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_distrib_ELT.F -o cfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_lastrtnelind.F -o cfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_alloc_cb.F -o cfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_compress_cb.F -o cfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_free_block_cb.F -o cfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_stack_aux.F -o cfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_stack.F -o cfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_band.F -o cfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_blfac_slave.F -o cfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_blocfacto_LDLT.F -o cfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_blocfacto.F -o cfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_bf.F -o cfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_end_facto_slave.F -o cfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_contrib_type1.F -o cfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_contrib_type2.F -o cfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_contrib_type3.F -o cfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_maprow.F -o cfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_master2.F -o cfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_message.F -o cfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_root2slave.F -o cfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_root2son.F -o cfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_rtnelind.F -o cfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_root_parallel.F -o cfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_scalings.F -o cfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_determinant.F -o cfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_scalings_simScaleAbs.F -o cfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_scalings_simScale_util.F -o cfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_sol_pool.F -o cfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_type3_symmetrize.F -o cfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cini_defaults.F -o cini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_c \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o cmumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_driver.F -o cmumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_f77.F -o cmumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_iXamax.F -o cmumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_mtrans.F -o cana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cooc_panel_piv.F -o cooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c crank_revealing.F -o crank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_aux.F -o csol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_bwd_aux.F -o csol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_bwd.F -o csol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_c.F -o csol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_fwd_aux.F -o csol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_fwd.F -o csol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_matvec.F -o csol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_root_parallel.F -o csol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ctools.F -o ctools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ctype3_root.F -o ctype3_root.o /usr/pbs/bin/ar cr ../lib/libcmumps.a cana_aux_par.o cana_lr.o cfac_asm_master_m.o cfac_asm_master_ELT_m.o comp_tps_m.o cmumps_comm_buffer.o cmumps_load.o cmumps_lr_data_m.o cmumps_ooc_buffer.o cmumps_ooc.o cmumps_struc_def.o cstatic_ptr_m.o clr_core.o clr_type.o clr_stats.o cfac_lr.o cfac_omp_m.o cfac_par_m.o cfac_front_LU_type1.o cfac_front_LU_type2.o cfac_front_LDLT_type1.o cfac_front_LDLT_type2.o cfac_front_aux.o cfac_front_type2_aux.o cmumps_save_restore_files.o cmumps_save_restore.o cini_driver.o cana_driver.o cfac_driver.o csol_driver.o cend_driver.o cana_aux_ELT.o cana_aux.o cana_dist_m.o cana_LDLT_preprocess.o cana_reordertree.o carrowheads.o cbcast_int.o cfac_asm_ELT.o cfac_asm.o cfac_b.o cfac_distrib_distentry.o cfac_distrib_ELT.o cfac_lastrtnelind.o cfac_mem_alloc_cb.o cfac_mem_compress_cb.o cfac_mem_free_block_cb.o cfac_mem_stack_aux.o cfac_mem_stack.o cfac_process_band.o cfac_process_blfac_slave.o cfac_process_blocfacto_LDLT.o cfac_process_blocfacto.o cfac_process_bf.o cfac_process_end_facto_slave.o cfac_process_contrib_type1.o cfac_process_contrib_type2.o cfac_process_contrib_type3.o cfac_process_maprow.o cfac_process_master2.o cfac_process_message.o cfac_process_root2slave.o cfac_process_root2son.o cfac_process_rtnelind.o cfac_root_parallel.o cfac_scalings.o cfac_determinant.o cfac_scalings_simScaleAbs.o cfac_scalings_simScale_util.o cfac_sol_pool.o cfac_type3_symmetrize.o cini_defaults.o cmumps_c.o cmumps_driver.o cmumps_f77.o cmumps_iXamax.o cana_mtrans.o cooc_panel_piv.o crank_revealing.o csol_aux.o csol_bwd_aux.o csol_bwd.o csol_c.o csol_fwd_aux.o csol_fwd.o csol_matvec.o csol_root_parallel.o ctools.o ctype3_root.o /usr/pbs/bin/ranlib ../lib/libcmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=z mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' (cd src ; make z) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=z mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_struc_def.F -o zmumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_aux_par.F -o zana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zlr_type.F -o zlr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_lr_data_m.F -o zmumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zlr_stats.F -o zlr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zlr_core.F -o zlr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_lr.F -o zana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zomp_tps_m.F -o zomp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_comm_buffer.F -o zmumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_load.F -o zmumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm_master_m.F -o zfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm_master_ELT_m.F -o zfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_ooc_buffer.F -o zmumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_ooc.F -o zmumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zstatic_ptr_m.F -o zstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_lr.F -o zfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_aux.F -o zfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LU_type1.F -o zfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LDLT_type1.F -o zfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_omp_m.F -o zfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_type2_aux.F -o zfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LU_type2.F -o zfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LDLT_type2.F -o zfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_par_m.F -o zfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_save_restore_files.F -o zmumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_save_restore.F -o zmumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zini_driver.F -o zini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_driver.F -o zana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_driver.F -o zfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_driver.F -o zsol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zend_driver.F -o zend_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_aux_ELT.F -o zana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_aux.F -o zana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_dist_m.F -o zana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_LDLT_preprocess.F -o zana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_reordertree.F -o zana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zarrowheads.F -o zarrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zbcast_int.F -o zbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm_ELT.F -o zfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm.F -o zfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_b.F -o zfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_distrib_distentry.F -o zfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_distrib_ELT.F -o zfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_lastrtnelind.F -o zfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_alloc_cb.F -o zfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_compress_cb.F -o zfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_free_block_cb.F -o zfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_stack_aux.F -o zfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_stack.F -o zfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_band.F -o zfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_blfac_slave.F -o zfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_blocfacto_LDLT.F -o zfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_blocfacto.F -o zfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_bf.F -o zfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_end_facto_slave.F -o zfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_contrib_type1.F -o zfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_contrib_type2.F -o zfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_contrib_type3.F -o zfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_maprow.F -o zfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_master2.F -o zfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_message.F -o zfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_root2slave.F -o zfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_root2son.F -o zfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_rtnelind.F -o zfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_root_parallel.F -o zfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_scalings.F -o zfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_determinant.F -o zfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_scalings_simScaleAbs.F -o zfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_scalings_simScale_util.F -o zfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_sol_pool.F -o zfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_type3_symmetrize.F -o zfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zini_defaults.F -o zini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_z \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o zmumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_driver.F -o zmumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_f77.F -o zmumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_iXamax.F -o zmumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_mtrans.F -o zana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zooc_panel_piv.F -o zooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zrank_revealing.F -o zrank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_aux.F -o zsol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_bwd_aux.F -o zsol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_bwd.F -o zsol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_c.F -o zsol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_fwd_aux.F -o zsol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_fwd.F -o zsol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_matvec.F -o zsol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_root_parallel.F -o zsol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ztools.F -o ztools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ztype3_root.F -o ztype3_root.o /usr/pbs/bin/ar cr ../lib/libzmumps.a zana_aux_par.o zana_lr.o zfac_asm_master_m.o zfac_asm_master_ELT_m.o zomp_tps_m.o zmumps_comm_buffer.o zmumps_load.o zmumps_lr_data_m.o zmumps_ooc_buffer.o zmumps_ooc.o zmumps_struc_def.o zstatic_ptr_m.o zlr_core.o zlr_type.o zlr_stats.o zfac_lr.o zfac_omp_m.o zfac_par_m.o zfac_front_LU_type1.o zfac_front_LU_type2.o zfac_front_LDLT_type1.o zfac_front_LDLT_type2.o zfac_front_aux.o zfac_front_type2_aux.o zmumps_save_restore_files.o zmumps_save_restore.o zini_driver.o zana_driver.o zfac_driver.o zsol_driver.o zend_driver.o zana_aux_ELT.o zana_aux.o zana_dist_m.o zana_LDLT_preprocess.o zana_reordertree.o zarrowheads.o zbcast_int.o zfac_asm_ELT.o zfac_asm.o zfac_b.o zfac_distrib_distentry.o zfac_distrib_ELT.o zfac_lastrtnelind.o zfac_mem_alloc_cb.o zfac_mem_compress_cb.o zfac_mem_free_block_cb.o zfac_mem_stack_aux.o zfac_mem_stack.o zfac_process_band.o zfac_process_blfac_slave.o zfac_process_blocfacto_LDLT.o zfac_process_blocfacto.o zfac_process_bf.o zfac_process_end_facto_slave.o zfac_process_contrib_type1.o zfac_process_contrib_type2.o zfac_process_contrib_type3.o zfac_process_maprow.o zfac_process_master2.o zfac_process_message.o zfac_process_root2slave.o zfac_process_root2son.o zfac_process_rtnelind.o zfac_root_parallel.o zfac_scalings.o zfac_determinant.o zfac_scalings_simScaleAbs.o zfac_scalings_simScale_util.o zfac_sol_pool.o zfac_type3_symmetrize.o zini_defaults.o zmumps_c.o zmumps_driver.o zmumps_f77.o zmumps_iXamax.o zana_mtrans.o zooc_panel_piv.o zrank_revealing.o zsol_aux.o zsol_bwd_aux.o zsol_bwd.o zsol_c.o zsol_fwd_aux.o zsol_fwd.o zsol_matvec.o zsol_root_parallel.o ztools.o ztype3_root.o /usr/pbs/bin/ranlib ../lib/libzmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=s mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' (cd src ; make s) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=s mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_struc_def.F -o smumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_aux_par.F -o sana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c slr_type.F -o slr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_lr_data_m.F -o smumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c slr_stats.F -o slr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c slr_core.F -o slr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_lr.F -o sana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c somp_tps_m.F -o somp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_comm_buffer.F -o smumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_load.F -o smumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm_master_m.F -o sfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm_master_ELT_m.F -o sfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_ooc_buffer.F -o smumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_ooc.F -o smumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sstatic_ptr_m.F -o sstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_lr.F -o sfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_aux.F -o sfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LU_type1.F -o sfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LDLT_type1.F -o sfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_omp_m.F -o sfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_type2_aux.F -o sfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LU_type2.F -o sfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LDLT_type2.F -o sfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_par_m.F -o sfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_save_restore_files.F -o smumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_save_restore.F -o smumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sini_driver.F -o sini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_driver.F -o sana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_driver.F -o sfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_driver.F -o ssol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c send_driver.F -o send_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_aux_ELT.F -o sana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_aux.F -o sana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_dist_m.F -o sana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_LDLT_preprocess.F -o sana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_reordertree.F -o sana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sarrowheads.F -o sarrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sbcast_int.F -o sbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm_ELT.F -o sfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm.F -o sfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_b.F -o sfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_distrib_distentry.F -o sfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_distrib_ELT.F -o sfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_lastrtnelind.F -o sfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_alloc_cb.F -o sfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_compress_cb.F -o sfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_free_block_cb.F -o sfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_stack_aux.F -o sfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_stack.F -o sfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_band.F -o sfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_blfac_slave.F -o sfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_blocfacto_LDLT.F -o sfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_blocfacto.F -o sfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_bf.F -o sfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_end_facto_slave.F -o sfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_contrib_type1.F -o sfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_contrib_type2.F -o sfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_contrib_type3.F -o sfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_maprow.F -o sfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_master2.F -o sfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_message.F -o sfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_root2slave.F -o sfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_root2son.F -o sfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_rtnelind.F -o sfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_root_parallel.F -o sfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_scalings.F -o sfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_determinant.F -o sfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_scalings_simScaleAbs.F -o sfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_scalings_simScale_util.F -o sfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_sol_pool.F -o sfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_type3_symmetrize.F -o sfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sini_defaults.F -o sini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_s \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o smumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_driver.F -o smumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_f77.F -o smumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_iXamax.F -o smumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_mtrans.F -o sana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sooc_panel_piv.F -o sooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c srank_revealing.F -o srank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_aux.F -o ssol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_bwd_aux.F -o ssol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_bwd.F -o ssol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_c.F -o ssol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_fwd_aux.F -o ssol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_fwd.F -o ssol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_matvec.F -o ssol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_root_parallel.F -o ssol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c stools.F -o stools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c stype3_root.F -o stype3_root.o /usr/pbs/bin/ar cr ../lib/libsmumps.a sana_aux_par.o sana_lr.o sfac_asm_master_m.o sfac_asm_master_ELT_m.o somp_tps_m.o smumps_comm_buffer.o smumps_load.o smumps_lr_data_m.o smumps_ooc_buffer.o smumps_ooc.o smumps_struc_def.o sstatic_ptr_m.o slr_core.o slr_type.o slr_stats.o sfac_lr.o sfac_omp_m.o sfac_par_m.o sfac_front_LU_type1.o sfac_front_LU_type2.o sfac_front_LDLT_type1.o sfac_front_LDLT_type2.o sfac_front_aux.o sfac_front_type2_aux.o smumps_save_restore_files.o smumps_save_restore.o sini_driver.o sana_driver.o sfac_driver.o ssol_driver.o send_driver.o sana_aux_ELT.o sana_aux.o sana_dist_m.o sana_LDLT_preprocess.o sana_reordertree.o sarrowheads.o sbcast_int.o sfac_asm_ELT.o sfac_asm.o sfac_b.o sfac_distrib_distentry.o sfac_distrib_ELT.o sfac_lastrtnelind.o sfac_mem_alloc_cb.o sfac_mem_compress_cb.o sfac_mem_free_block_cb.o sfac_mem_stack_aux.o sfac_mem_stack.o sfac_process_band.o sfac_process_blfac_slave.o sfac_process_blocfacto_LDLT.o sfac_process_blocfacto.o sfac_process_bf.o sfac_process_end_facto_slave.o sfac_process_contrib_type1.o sfac_process_contrib_type2.o sfac_process_contrib_type3.o sfac_process_maprow.o sfac_process_master2.o sfac_process_message.o sfac_process_root2slave.o sfac_process_root2son.o sfac_process_rtnelind.o sfac_root_parallel.o sfac_scalings.o sfac_determinant.o sfac_scalings_simScaleAbs.o sfac_scalings_simScale_util.o sfac_sol_pool.o sfac_type3_symmetrize.o sini_defaults.o smumps_c.o smumps_driver.o smumps_f77.o smumps_iXamax.o sana_mtrans.o sooc_panel_piv.o srank_revealing.o ssol_aux.o ssol_bwd_aux.o ssol_bwd.o ssol_c.o ssol_fwd_aux.o ssol_fwd.o ssol_matvec.o ssol_root_parallel.o stools.o stype3_root.o /usr/pbs/bin/ranlib ../lib/libsmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=d mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' (cd src ; make d) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=d mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_struc_def.F -o dmumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_aux_par.F -o dana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dlr_type.F -o dlr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_lr_data_m.F -o dmumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dlr_stats.F -o dlr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dlr_core.F -o dlr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_lr.F -o dana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c domp_tps_m.F -o domp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_comm_buffer.F -o dmumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_load.F -o dmumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm_master_m.F -o dfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm_master_ELT_m.F -o dfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_ooc_buffer.F -o dmumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_ooc.F -o dmumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dstatic_ptr_m.F -o dstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_lr.F -o dfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_aux.F -o dfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LU_type1.F -o dfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LDLT_type1.F -o dfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_omp_m.F -o dfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_type2_aux.F -o dfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LU_type2.F -o dfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LDLT_type2.F -o dfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_par_m.F -o dfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_save_restore_files.F -o dmumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_save_restore.F -o dmumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dini_driver.F -o dini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_driver.F -o dana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_driver.F -o dfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_driver.F -o dsol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dend_driver.F -o dend_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_aux_ELT.F -o dana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_aux.F -o dana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_dist_m.F -o dana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_LDLT_preprocess.F -o dana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_reordertree.F -o dana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c darrowheads.F -o darrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dbcast_int.F -o dbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm_ELT.F -o dfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm.F -o dfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_b.F -o dfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_distrib_distentry.F -o dfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_distrib_ELT.F -o dfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_lastrtnelind.F -o dfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_alloc_cb.F -o dfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_compress_cb.F -o dfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_free_block_cb.F -o dfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_stack_aux.F -o dfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_stack.F -o dfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_band.F -o dfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_blfac_slave.F -o dfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_blocfacto_LDLT.F -o dfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_blocfacto.F -o dfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_bf.F -o dfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_end_facto_slave.F -o dfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_contrib_type1.F -o dfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_contrib_type2.F -o dfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_contrib_type3.F -o dfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_maprow.F -o dfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_master2.F -o dfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_message.F -o dfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_root2slave.F -o dfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_root2son.F -o dfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_rtnelind.F -o dfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_root_parallel.F -o dfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_scalings.F -o dfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_determinant.F -o dfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_scalings_simScaleAbs.F -o dfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_scalings_simScale_util.F -o dfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_sol_pool.F -o dfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_type3_symmetrize.F -o dfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dini_defaults.F -o dini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_d \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o dmumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_driver.F -o dmumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_f77.F -o dmumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_iXamax.F -o dmumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_mtrans.F -o dana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dooc_panel_piv.F -o dooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c drank_revealing.F -o drank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_aux.F -o dsol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_bwd_aux.F -o dsol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_bwd.F -o dsol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_c.F -o dsol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_fwd_aux.F -o dsol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_fwd.F -o dsol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_matvec.F -o dsol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_root_parallel.F -o dsol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dtools.F -o dtools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dtype3_root.F -o dtype3_root.o /usr/pbs/bin/ar cr ../lib/libdmumps.a dana_aux_par.o dana_lr.o dfac_asm_master_m.o dfac_asm_master_ELT_m.o domp_tps_m.o dmumps_comm_buffer.o dmumps_load.o dmumps_lr_data_m.o dmumps_ooc_buffer.o dmumps_ooc.o dmumps_struc_def.o dstatic_ptr_m.o dlr_core.o dlr_type.o dlr_stats.o dfac_lr.o dfac_omp_m.o dfac_par_m.o dfac_front_LU_type1.o dfac_front_LU_type2.o dfac_front_LDLT_type1.o dfac_front_LDLT_type2.o dfac_front_aux.o dfac_front_type2_aux.o dmumps_save_restore_files.o dmumps_save_restore.o dini_driver.o dana_driver.o dfac_driver.o dsol_driver.o dend_driver.o dana_aux_ELT.o dana_aux.o dana_dist_m.o dana_LDLT_preprocess.o dana_reordertree.o darrowheads.o dbcast_int.o dfac_asm_ELT.o dfac_asm.o dfac_b.o dfac_distrib_distentry.o dfac_distrib_ELT.o dfac_lastrtnelind.o dfac_mem_alloc_cb.o dfac_mem_compress_cb.o dfac_mem_free_block_cb.o dfac_mem_stack_aux.o dfac_mem_stack.o dfac_process_band.o dfac_process_blfac_slave.o dfac_process_blocfacto_LDLT.o dfac_process_blocfacto.o dfac_process_bf.o dfac_process_end_facto_slave.o dfac_process_contrib_type1.o dfac_process_contrib_type2.o dfac_process_contrib_type3.o dfac_process_maprow.o dfac_process_master2.o dfac_process_message.o dfac_process_root2slave.o dfac_process_root2son.o dfac_process_rtnelind.o dfac_root_parallel.o dfac_scalings.o dfac_determinant.o dfac_scalings_simScaleAbs.o dfac_scalings_simScale_util.o dfac_sol_pool.o dfac_type3_symmetrize.o dini_defaults.o dmumps_c.o dmumps_driver.o dmumps_f77.o dmumps_iXamax.o dana_mtrans.o dooc_panel_piv.o drank_revealing.o dsol_aux.o dsol_bwd_aux.o dsol_bwd.o dsol_c.o dsol_fwd_aux.o dsol_fwd.o dsol_matvec.o dsol_root_parallel.o dtools.o dtype3_root.o /usr/pbs/bin/ranlib ../lib/libdmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make[1]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' =============================================================================== Installing Mumps; this may take several minutes =============================================================================== Executing: ['mkdir', '-p', '/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib', '/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include'] Executing: cp -f lib/*.* /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/. Executing: cp -f include/*.* /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include/. Executing: ['cp', '-f', 'libseq/libmpiseq.a', '/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/.'] ********Output of running make on MUMPS follows ******* make[1]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd src; make clean) make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' /bin/rm -f *.o *.mod make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' (cd examples; make clean) make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/examples' /bin/rm -f *.o [sdcz]simpletest c_example multiple_arithmetics_example make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/examples' (cd ./lib; /bin/rm -f *.a) (cd libseq; make clean) make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' /bin/rm -f *.o *.a make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' if [ "./PORD/lib/" != "" ] ; then \ cd ./PORD/lib/; make realclean; \ fi; make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' rm -f *.o libpord.a make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' make[1]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps'make[1]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=c mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' gfortran -fopenmp -fPIC -c mpi.f -o mpi.o gcc -fopenmp -fPIC -DAdd_ -I. -c mpic.c -o mpic.o gcc -fopenmp -fPIC -DAdd_ -I. -c elapse.c -o elapse.o /usr/pbs/bin/ar cr libmpiseq.a mpi.o mpic.o elapse.o /usr/pbs/bin/ranlib libmpiseq.a make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' if [ "./PORD/lib/" != "" ] ; then \ cd ./PORD/lib/; \ make CC="gcc" CFLAGS="-fopenmp -fPIC" AR="/usr/pbs/bin/ar cr " RANLIB="/usr/pbs/bin/ranlib" OUTC="-o " LIBEXT=.a; \ fi; make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' gcc -I../include -fopenmp -fPIC -c graph.c -o graph.o gcc -I../include -fopenmp -fPIC -c gbipart.c -o gbipart.o gcc -I../include -fopenmp -fPIC -c gbisect.c -o gbisect.o gcc -I../include -fopenmp -fPIC -c ddcreate.c -o ddcreate.o gcc -I../include -fopenmp -fPIC -c ddbisect.c -o ddbisect.o gcc -I../include -fopenmp -fPIC -c nestdiss.c -o nestdiss.o gcc -I../include -fopenmp -fPIC -c multisector.c -o multisector.o gcc -I../include -fopenmp -fPIC -c gelim.c -o gelim.o gcc -I../include -fopenmp -fPIC -c bucket.c -o bucket.o gcc -I../include -fopenmp -fPIC -c tree.c -o tree.o gcc -I../include -fopenmp -fPIC -c symbfac.c -o symbfac.o gcc -I../include -fopenmp -fPIC -c interface.c -o interface.o gcc -I../include -fopenmp -fPIC -c sort.c -o sort.o gcc -I../include -fopenmp -fPIC -c minpriority.c -o minpriority.o /usr/pbs/bin/ar cr libpord.a graph.o gbipart.o gbisect.o ddcreate.o ddbisect.o nestdiss.o multisector.o gelim.o bucket.o tree.o symbfac.o interface.o sort.o minpriority.o /usr/pbs/bin/ranlib libpord.a make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/PORD/lib' if [ "./PORD/lib/" != "" ] ; then \ cp ./PORD/lib//libpord.a lib/libpord.a; \ fi; (cd src ; make c) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=c mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c lr_common.F -o lr_common.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c double_linked_list.F -o double_linked_list.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_omp_m.F -o ana_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_orderings_wrappers_m.F -o ana_orderings_wrappers_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_memory_mod.F -o mumps_memory_mod.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_static_mapping.F -o mumps_static_mapping.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_sol_es.F -o mumps_sol_es.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_future_niv2_mod.F -o fac_future_niv2_mod.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_comm_ibcast.F -o mumps_comm_ibcast.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_ooc_common.F -o mumps_ooc_common.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c omp_tps_common_m.F -o omp_tps_common_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_asm_build_sort_index_m.F -o fac_asm_build_sort_index_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_asm_build_sort_index_ELT_m.F -o fac_asm_build_sort_index_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_l0_omp_m.F -o mumps_l0_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c front_data_mgt_m.F -o front_data_mgt_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_maprow_data_m.F -o fac_maprow_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_descband_data_m.F -o fac_descband_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c fac_ibct_data_m.F -o fac_ibct_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_orderings.F -o ana_orderings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_AMDMF.F -o ana_AMDMF.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c bcast_errors.F -o bcast_errors.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c estim_flops.F -o estim_flops.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_type_size.F -o mumps_type_size.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_type2_blocking.F -o mumps_type2_blocking.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_version.F -o mumps_version.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c tools_common.F -o tools_common.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c mumps_print_defined.F -o mumps_print_defined.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_common.c -o mumps_common.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_pord.c -o mumps_pord.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_metis.c -o mumps_metis.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_metis64.c -o mumps_metis64.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_metis_int.c -o mumps_metis_int.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_scotch.c -o mumps_scotch.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_scotch64.c -o mumps_scotch64.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_scotch_int.c -o mumps_scotch_int.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_size.c -o mumps_size.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io.c -o mumps_io.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io_basic.c -o mumps_io_basic.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io_thread.c -o mumps_io_thread.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_io_err.c -o mumps_io_err.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ana_set_ordering.F -o ana_set_ordering.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_numa.c -o mumps_numa.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_thread.c -o mumps_thread.o gcc -fopenmp -fPIC -I../libseq -I../include -DAdd_ -I../PORD/include/ -Dpord -c mumps_save_restore_C.c -o mumps_save_restore_C.o /usr/pbs/bin/ar cr ../lib/libmumps_common.a lr_common.o ana_omp_m.o ana_orderings_wrappers_m.o mumps_memory_mod.o mumps_static_mapping.o mumps_sol_es.o fac_future_niv2_mod.o mumps_comm_ibcast.o mumps_ooc_common.o double_linked_list.o fac_asm_build_sort_index_m.o fac_asm_build_sort_index_ELT_m.o omp_tps_common_m.o mumps_l0_omp_m.o front_data_mgt_m.o fac_maprow_data_m.o fac_descband_data_m.o fac_ibct_data_m.o ana_orderings.o ana_AMDMF.o bcast_errors.o estim_flops.o mumps_type_size.o mumps_type2_blocking.o mumps_version.o tools_common.o mumps_print_defined.o mumps_common.o mumps_pord.o mumps_metis.o mumps_metis64.o mumps_metis_int.o mumps_scotch.o mumps_scotch64.o mumps_scotch_int.o mumps_size.o mumps_io.o mumps_io_basic.o mumps_io_thread.o mumps_io_err.o ana_set_ordering.o mumps_numa.o mumps_thread.o mumps_save_restore_C.o /usr/pbs/bin/ranlib ../lib/libmumps_common.a gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_struc_def.F -o cmumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_aux_par.F -o cana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c clr_type.F -o clr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_lr_data_m.F -o cmumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c clr_stats.F -o clr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c clr_core.F -o clr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_lr.F -o cana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c comp_tps_m.F -o comp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_comm_buffer.F -o cmumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_load.F -o cmumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm_master_m.F -o cfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm_master_ELT_m.F -o cfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_ooc_buffer.F -o cmumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_ooc.F -o cmumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cstatic_ptr_m.F -o cstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_lr.F -o cfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_aux.F -o cfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LU_type1.F -o cfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LDLT_type1.F -o cfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_omp_m.F -o cfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_type2_aux.F -o cfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LU_type2.F -o cfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_front_LDLT_type2.F -o cfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_par_m.F -o cfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_save_restore_files.F -o cmumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_save_restore.F -o cmumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cini_driver.F -o cini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_driver.F -o cana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_driver.F -o cfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_driver.F -o csol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cend_driver.F -o cend_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_aux_ELT.F -o cana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_aux.F -o cana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_dist_m.F -o cana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_LDLT_preprocess.F -o cana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_reordertree.F -o cana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c carrowheads.F -o carrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cbcast_int.F -o cbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm_ELT.F -o cfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_asm.F -o cfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_b.F -o cfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_distrib_distentry.F -o cfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_distrib_ELT.F -o cfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_lastrtnelind.F -o cfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_alloc_cb.F -o cfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_compress_cb.F -o cfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_free_block_cb.F -o cfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_stack_aux.F -o cfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_mem_stack.F -o cfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_band.F -o cfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_blfac_slave.F -o cfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_blocfacto_LDLT.F -o cfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_blocfacto.F -o cfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_bf.F -o cfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_end_facto_slave.F -o cfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_contrib_type1.F -o cfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_contrib_type2.F -o cfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_contrib_type3.F -o cfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_maprow.F -o cfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_master2.F -o cfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_message.F -o cfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_root2slave.F -o cfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_root2son.F -o cfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_process_rtnelind.F -o cfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_root_parallel.F -o cfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_scalings.F -o cfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_determinant.F -o cfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_scalings_simScaleAbs.F -o cfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_scalings_simScale_util.F -o cfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_sol_pool.F -o cfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cfac_type3_symmetrize.F -o cfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cini_defaults.F -o cini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_c \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o cmumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_driver.F -o cmumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_f77.F -o cmumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cmumps_iXamax.F -o cmumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cana_mtrans.F -o cana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c cooc_panel_piv.F -o cooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c crank_revealing.F -o crank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_aux.F -o csol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_bwd_aux.F -o csol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_bwd.F -o csol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_c.F -o csol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_fwd_aux.F -o csol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_fwd.F -o csol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_matvec.F -o csol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c csol_root_parallel.F -o csol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ctools.F -o ctools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ctype3_root.F -o ctype3_root.o /usr/pbs/bin/ar cr ../lib/libcmumps.a cana_aux_par.o cana_lr.o cfac_asm_master_m.o cfac_asm_master_ELT_m.o comp_tps_m.o cmumps_comm_buffer.o cmumps_load.o cmumps_lr_data_m.o cmumps_ooc_buffer.o cmumps_ooc.o cmumps_struc_def.o cstatic_ptr_m.o clr_core.o clr_type.o clr_stats.o cfac_lr.o cfac_omp_m.o cfac_par_m.o cfac_front_LU_type1.o cfac_front_LU_type2.o cfac_front_LDLT_type1.o cfac_front_LDLT_type2.o cfac_front_aux.o cfac_front_type2_aux.o cmumps_save_restore_files.o cmumps_save_restore.o cini_driver.o cana_driver.o cfac_driver.o csol_driver.o cend_driver.o cana_aux_ELT.o cana_aux.o cana_dist_m.o cana_LDLT_preprocess.o cana_reordertree.o carrowheads.o cbcast_int.o cfac_asm_ELT.o cfac_asm.o cfac_b.o cfac_distrib_distentry.o cfac_distrib_ELT.o cfac_lastrtnelind.o cfac_mem_alloc_cb.o cfac_mem_compress_cb.o cfac_mem_free_block_cb.o cfac_mem_stack_aux.o cfac_mem_stack.o cfac_process_band.o cfac_process_blfac_slave.o cfac_process_blocfacto_LDLT.o cfac_process_blocfacto.o cfac_process_bf.o cfac_process_end_facto_slave.o cfac_process_contrib_type1.o cfac_process_contrib_type2.o cfac_process_contrib_type3.o cfac_process_maprow.o cfac_process_master2.o cfac_process_message.o cfac_process_root2slave.o cfac_process_root2son.o cfac_process_rtnelind.o cfac_root_parallel.o cfac_scalings.o cfac_determinant.o cfac_scalings_simScaleAbs.o cfac_scalings_simScale_util.o cfac_sol_pool.o cfac_type3_symmetrize.o cini_defaults.o cmumps_c.o cmumps_driver.o cmumps_f77.o cmumps_iXamax.o cana_mtrans.o cooc_panel_piv.o crank_revealing.o csol_aux.o csol_bwd_aux.o csol_bwd.o csol_c.o csol_fwd_aux.o csol_fwd.o csol_matvec.o csol_root_parallel.o ctools.o ctype3_root.o /usr/pbs/bin/ranlib ../lib/libcmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=z mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' (cd src ; make z) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=z mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_struc_def.F -o zmumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_aux_par.F -o zana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zlr_type.F -o zlr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_lr_data_m.F -o zmumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zlr_stats.F -o zlr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zlr_core.F -o zlr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_lr.F -o zana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zomp_tps_m.F -o zomp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_comm_buffer.F -o zmumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_load.F -o zmumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm_master_m.F -o zfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm_master_ELT_m.F -o zfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_ooc_buffer.F -o zmumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_ooc.F -o zmumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zstatic_ptr_m.F -o zstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_lr.F -o zfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_aux.F -o zfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LU_type1.F -o zfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LDLT_type1.F -o zfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_omp_m.F -o zfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_type2_aux.F -o zfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LU_type2.F -o zfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_front_LDLT_type2.F -o zfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_par_m.F -o zfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_save_restore_files.F -o zmumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_save_restore.F -o zmumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zini_driver.F -o zini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_driver.F -o zana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_driver.F -o zfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_driver.F -o zsol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zend_driver.F -o zend_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_aux_ELT.F -o zana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_aux.F -o zana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_dist_m.F -o zana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_LDLT_preprocess.F -o zana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_reordertree.F -o zana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zarrowheads.F -o zarrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zbcast_int.F -o zbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm_ELT.F -o zfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_asm.F -o zfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_b.F -o zfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_distrib_distentry.F -o zfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_distrib_ELT.F -o zfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_lastrtnelind.F -o zfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_alloc_cb.F -o zfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_compress_cb.F -o zfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_free_block_cb.F -o zfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_stack_aux.F -o zfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_mem_stack.F -o zfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_band.F -o zfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_blfac_slave.F -o zfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_blocfacto_LDLT.F -o zfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_blocfacto.F -o zfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_bf.F -o zfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_end_facto_slave.F -o zfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_contrib_type1.F -o zfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_contrib_type2.F -o zfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_contrib_type3.F -o zfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_maprow.F -o zfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_master2.F -o zfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_message.F -o zfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_root2slave.F -o zfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_root2son.F -o zfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_process_rtnelind.F -o zfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_root_parallel.F -o zfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_scalings.F -o zfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_determinant.F -o zfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_scalings_simScaleAbs.F -o zfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_scalings_simScale_util.F -o zfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_sol_pool.F -o zfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zfac_type3_symmetrize.F -o zfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zini_defaults.F -o zini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_z \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o zmumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_driver.F -o zmumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_f77.F -o zmumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zmumps_iXamax.F -o zmumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zana_mtrans.F -o zana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zooc_panel_piv.F -o zooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zrank_revealing.F -o zrank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_aux.F -o zsol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_bwd_aux.F -o zsol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_bwd.F -o zsol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_c.F -o zsol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_fwd_aux.F -o zsol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_fwd.F -o zsol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_matvec.F -o zsol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c zsol_root_parallel.F -o zsol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ztools.F -o ztools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ztype3_root.F -o ztype3_root.o /usr/pbs/bin/ar cr ../lib/libzmumps.a zana_aux_par.o zana_lr.o zfac_asm_master_m.o zfac_asm_master_ELT_m.o zomp_tps_m.o zmumps_comm_buffer.o zmumps_load.o zmumps_lr_data_m.o zmumps_ooc_buffer.o zmumps_ooc.o zmumps_struc_def.o zstatic_ptr_m.o zlr_core.o zlr_type.o zlr_stats.o zfac_lr.o zfac_omp_m.o zfac_par_m.o zfac_front_LU_type1.o zfac_front_LU_type2.o zfac_front_LDLT_type1.o zfac_front_LDLT_type2.o zfac_front_aux.o zfac_front_type2_aux.o zmumps_save_restore_files.o zmumps_save_restore.o zini_driver.o zana_driver.o zfac_driver.o zsol_driver.o zend_driver.o zana_aux_ELT.o zana_aux.o zana_dist_m.o zana_LDLT_preprocess.o zana_reordertree.o zarrowheads.o zbcast_int.o zfac_asm_ELT.o zfac_asm.o zfac_b.o zfac_distrib_distentry.o zfac_distrib_ELT.o zfac_lastrtnelind.o zfac_mem_alloc_cb.o zfac_mem_compress_cb.o zfac_mem_free_block_cb.o zfac_mem_stack_aux.o zfac_mem_stack.o zfac_process_band.o zfac_process_blfac_slave.o zfac_process_blocfacto_LDLT.o zfac_process_blocfacto.o zfac_process_bf.o zfac_process_end_facto_slave.o zfac_process_contrib_type1.o zfac_process_contrib_type2.o zfac_process_contrib_type3.o zfac_process_maprow.o zfac_process_master2.o zfac_process_message.o zfac_process_root2slave.o zfac_process_root2son.o zfac_process_rtnelind.o zfac_root_parallel.o zfac_scalings.o zfac_determinant.o zfac_scalings_simScaleAbs.o zfac_scalings_simScale_util.o zfac_sol_pool.o zfac_type3_symmetrize.o zini_defaults.o zmumps_c.o zmumps_driver.o zmumps_f77.o zmumps_iXamax.o zana_mtrans.o zooc_panel_piv.o zrank_revealing.o zsol_aux.o zsol_bwd_aux.o zsol_bwd.o zsol_c.o zsol_fwd_aux.o zsol_fwd.o zsol_matvec.o zsol_root_parallel.o ztools.o ztype3_root.o /usr/pbs/bin/ranlib ../lib/libzmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=s mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' (cd src ; make s) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=s mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_struc_def.F -o smumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_aux_par.F -o sana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c slr_type.F -o slr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_lr_data_m.F -o smumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c slr_stats.F -o slr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c slr_core.F -o slr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_lr.F -o sana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c somp_tps_m.F -o somp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_comm_buffer.F -o smumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_load.F -o smumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm_master_m.F -o sfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm_master_ELT_m.F -o sfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_ooc_buffer.F -o smumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_ooc.F -o smumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sstatic_ptr_m.F -o sstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_lr.F -o sfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_aux.F -o sfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LU_type1.F -o sfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LDLT_type1.F -o sfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_omp_m.F -o sfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_type2_aux.F -o sfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LU_type2.F -o sfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_front_LDLT_type2.F -o sfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_par_m.F -o sfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_save_restore_files.F -o smumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_save_restore.F -o smumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sini_driver.F -o sini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_driver.F -o sana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_driver.F -o sfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_driver.F -o ssol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c send_driver.F -o send_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_aux_ELT.F -o sana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_aux.F -o sana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_dist_m.F -o sana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_LDLT_preprocess.F -o sana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_reordertree.F -o sana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sarrowheads.F -o sarrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sbcast_int.F -o sbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm_ELT.F -o sfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_asm.F -o sfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_b.F -o sfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_distrib_distentry.F -o sfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_distrib_ELT.F -o sfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_lastrtnelind.F -o sfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_alloc_cb.F -o sfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_compress_cb.F -o sfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_free_block_cb.F -o sfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_stack_aux.F -o sfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_mem_stack.F -o sfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_band.F -o sfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_blfac_slave.F -o sfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_blocfacto_LDLT.F -o sfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_blocfacto.F -o sfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_bf.F -o sfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_end_facto_slave.F -o sfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_contrib_type1.F -o sfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_contrib_type2.F -o sfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_contrib_type3.F -o sfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_maprow.F -o sfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_master2.F -o sfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_message.F -o sfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_root2slave.F -o sfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_root2son.F -o sfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_process_rtnelind.F -o sfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_root_parallel.F -o sfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_scalings.F -o sfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_determinant.F -o sfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_scalings_simScaleAbs.F -o sfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_scalings_simScale_util.F -o sfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_sol_pool.F -o sfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sfac_type3_symmetrize.F -o sfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sini_defaults.F -o sini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_s \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o smumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_driver.F -o smumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_f77.F -o smumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c smumps_iXamax.F -o smumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sana_mtrans.F -o sana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c sooc_panel_piv.F -o sooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c srank_revealing.F -o srank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_aux.F -o ssol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_bwd_aux.F -o ssol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_bwd.F -o ssol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_c.F -o ssol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_fwd_aux.F -o ssol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_fwd.F -o ssol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_matvec.F -o ssol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c ssol_root_parallel.F -o ssol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c stools.F -o stools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c stype3_root.F -o stype3_root.o /usr/pbs/bin/ar cr ../lib/libsmumps.a sana_aux_par.o sana_lr.o sfac_asm_master_m.o sfac_asm_master_ELT_m.o somp_tps_m.o smumps_comm_buffer.o smumps_load.o smumps_lr_data_m.o smumps_ooc_buffer.o smumps_ooc.o smumps_struc_def.o sstatic_ptr_m.o slr_core.o slr_type.o slr_stats.o sfac_lr.o sfac_omp_m.o sfac_par_m.o sfac_front_LU_type1.o sfac_front_LU_type2.o sfac_front_LDLT_type1.o sfac_front_LDLT_type2.o sfac_front_aux.o sfac_front_type2_aux.o smumps_save_restore_files.o smumps_save_restore.o sini_driver.o sana_driver.o sfac_driver.o ssol_driver.o send_driver.o sana_aux_ELT.o sana_aux.o sana_dist_m.o sana_LDLT_preprocess.o sana_reordertree.o sarrowheads.o sbcast_int.o sfac_asm_ELT.o sfac_asm.o sfac_b.o sfac_distrib_distentry.o sfac_distrib_ELT.o sfac_lastrtnelind.o sfac_mem_alloc_cb.o sfac_mem_compress_cb.o sfac_mem_free_block_cb.o sfac_mem_stack_aux.o sfac_mem_stack.o sfac_process_band.o sfac_process_blfac_slave.o sfac_process_blocfacto_LDLT.o sfac_process_blocfacto.o sfac_process_bf.o sfac_process_end_facto_slave.o sfac_process_contrib_type1.o sfac_process_contrib_type2.o sfac_process_contrib_type3.o sfac_process_maprow.o sfac_process_master2.o sfac_process_message.o sfac_process_root2slave.o sfac_process_root2son.o sfac_process_rtnelind.o sfac_root_parallel.o sfac_scalings.o sfac_determinant.o sfac_scalings_simScaleAbs.o sfac_scalings_simScale_util.o sfac_sol_pool.o sfac_type3_symmetrize.o sini_defaults.o smumps_c.o smumps_driver.o smumps_f77.o smumps_iXamax.o sana_mtrans.o sooc_panel_piv.o srank_revealing.o ssol_aux.o ssol_bwd_aux.o ssol_bwd.o ssol_c.o ssol_fwd_aux.o ssol_fwd.o ssol_matvec.o ssol_root_parallel.o stools.o stype3_root.o /usr/pbs/bin/ranlib ../lib/libsmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make ARITH=d mumps_lib make[2]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' (cd libseq; make) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/libseq' (cd src ; make d) make[3]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make ARITH=d mumps_lib make[4]: Entering directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_struc_def.F -o dmumps_struc_def.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_aux_par.F -o dana_aux_par.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dlr_type.F -o dlr_type.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_lr_data_m.F -o dmumps_lr_data_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dlr_stats.F -o dlr_stats.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dlr_core.F -o dlr_core.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_lr.F -o dana_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c domp_tps_m.F -o domp_tps_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_comm_buffer.F -o dmumps_comm_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_load.F -o dmumps_load.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm_master_m.F -o dfac_asm_master_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm_master_ELT_m.F -o dfac_asm_master_ELT_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_ooc_buffer.F -o dmumps_ooc_buffer.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_ooc.F -o dmumps_ooc.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dstatic_ptr_m.F -o dstatic_ptr_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_lr.F -o dfac_lr.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_aux.F -o dfac_front_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LU_type1.F -o dfac_front_LU_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LDLT_type1.F -o dfac_front_LDLT_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_omp_m.F -o dfac_omp_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_type2_aux.F -o dfac_front_type2_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LU_type2.F -o dfac_front_LU_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_front_LDLT_type2.F -o dfac_front_LDLT_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_par_m.F -o dfac_par_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_save_restore_files.F -o dmumps_save_restore_files.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_save_restore.F -o dmumps_save_restore.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dini_driver.F -o dini_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_driver.F -o dana_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_driver.F -o dfac_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_driver.F -o dsol_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dend_driver.F -o dend_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_aux_ELT.F -o dana_aux_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_aux.F -o dana_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_dist_m.F -o dana_dist_m.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_LDLT_preprocess.F -o dana_LDLT_preprocess.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_reordertree.F -o dana_reordertree.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c darrowheads.F -o darrowheads.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dbcast_int.F -o dbcast_int.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm_ELT.F -o dfac_asm_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_asm.F -o dfac_asm.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_b.F -o dfac_b.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_distrib_distentry.F -o dfac_distrib_distentry.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_distrib_ELT.F -o dfac_distrib_ELT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_lastrtnelind.F -o dfac_lastrtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_alloc_cb.F -o dfac_mem_alloc_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_compress_cb.F -o dfac_mem_compress_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_free_block_cb.F -o dfac_mem_free_block_cb.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_stack_aux.F -o dfac_mem_stack_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_mem_stack.F -o dfac_mem_stack.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_band.F -o dfac_process_band.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_blfac_slave.F -o dfac_process_blfac_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_blocfacto_LDLT.F -o dfac_process_blocfacto_LDLT.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_blocfacto.F -o dfac_process_blocfacto.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_bf.F -o dfac_process_bf.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_end_facto_slave.F -o dfac_process_end_facto_slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_contrib_type1.F -o dfac_process_contrib_type1.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_contrib_type2.F -o dfac_process_contrib_type2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_contrib_type3.F -o dfac_process_contrib_type3.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_maprow.F -o dfac_process_maprow.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_master2.F -o dfac_process_master2.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_message.F -o dfac_process_message.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_root2slave.F -o dfac_process_root2slave.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_root2son.F -o dfac_process_root2son.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_process_rtnelind.F -o dfac_process_rtnelind.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_root_parallel.F -o dfac_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_scalings.F -o dfac_scalings.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_determinant.F -o dfac_determinant.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_scalings_simScaleAbs.F -o dfac_scalings_simScaleAbs.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_scalings_simScale_util.F -o dfac_scalings_simScale_util.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_sol_pool.F -o dfac_sol_pool.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dfac_type3_symmetrize.F -o dfac_type3_symmetrize.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dini_defaults.F -o dini_defaults.o gcc -fopenmp -fPIC -I../libseq -DAdd_ -DMUMPS_ARITH=MUMPS_ARITH_d \ -I../PORD/include/ -Dpord -I../include -c mumps_c.c -o dmumps_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_driver.F -o dmumps_driver.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_f77.F -o dmumps_f77.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dmumps_iXamax.F -o dmumps_iXamax.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dana_mtrans.F -o dana_mtrans.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dooc_panel_piv.F -o dooc_panel_piv.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c drank_revealing.F -o drank_revealing.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_aux.F -o dsol_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_bwd_aux.F -o dsol_bwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_bwd.F -o dsol_bwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_c.F -o dsol_c.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_fwd_aux.F -o dsol_fwd_aux.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_fwd.F -o dsol_fwd.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_matvec.F -o dsol_matvec.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dsol_root_parallel.F -o dsol_root_parallel.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dtools.F -o dtools.o gfortran -fopenmp -fPIC -I../libseq -Dpord -I. -I../include -c dtype3_root.F -o dtype3_root.o /usr/pbs/bin/ar cr ../lib/libdmumps.a dana_aux_par.o dana_lr.o dfac_asm_master_m.o dfac_asm_master_ELT_m.o domp_tps_m.o dmumps_comm_buffer.o dmumps_load.o dmumps_lr_data_m.o dmumps_ooc_buffer.o dmumps_ooc.o dmumps_struc_def.o dstatic_ptr_m.o dlr_core.o dlr_type.o dlr_stats.o dfac_lr.o dfac_omp_m.o dfac_par_m.o dfac_front_LU_type1.o dfac_front_LU_type2.o dfac_front_LDLT_type1.o dfac_front_LDLT_type2.o dfac_front_aux.o dfac_front_type2_aux.o dmumps_save_restore_files.o dmumps_save_restore.o dini_driver.o dana_driver.o dfac_driver.o dsol_driver.o dend_driver.o dana_aux_ELT.o dana_aux.o dana_dist_m.o dana_LDLT_preprocess.o dana_reordertree.o darrowheads.o dbcast_int.o dfac_asm_ELT.o dfac_asm.o dfac_b.o dfac_distrib_distentry.o dfac_distrib_ELT.o dfac_lastrtnelind.o dfac_mem_alloc_cb.o dfac_mem_compress_cb.o dfac_mem_free_block_cb.o dfac_mem_stack_aux.o dfac_mem_stack.o dfac_process_band.o dfac_process_blfac_slave.o dfac_process_blocfacto_LDLT.o dfac_process_blocfacto.o dfac_process_bf.o dfac_process_end_facto_slave.o dfac_process_contrib_type1.o dfac_process_contrib_type2.o dfac_process_contrib_type3.o dfac_process_maprow.o dfac_process_master2.o dfac_process_message.o dfac_process_root2slave.o dfac_process_root2son.o dfac_process_rtnelind.o dfac_root_parallel.o dfac_scalings.o dfac_determinant.o dfac_scalings_simScaleAbs.o dfac_scalings_simScale_util.o dfac_sol_pool.o dfac_type3_symmetrize.o dini_defaults.o dmumps_c.o dmumps_driver.o dmumps_f77.o dmumps_iXamax.o dana_mtrans.o dooc_panel_piv.o drank_revealing.o dsol_aux.o dsol_bwd_aux.o dsol_bwd.o dsol_c.o dsol_fwd_aux.o dsol_fwd.o dsol_matvec.o dsol_root_parallel.o dtools.o dtype3_root.o /usr/pbs/bin/ranlib ../lib/libdmumps.a make[4]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[3]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps/src' make[2]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps' make[1]: Leaving directory `/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/externalpackages/git.mumps'mpi.f:566:34: CALL MUMPS_COPY_LOGICAL( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to LOGICAL(4) mpi.f:568:31: CALL MUMPS_COPY_REAL( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to REAL(4) mpi.f:571:43: CALL MUMPS_COPY_DOUBLE_PRECISION( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to REAL(8) mpi.f:573:34: CALL MUMPS_COPY_COMPLEX( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to COMPLEX(4) mpi.f:575:41: CALL MUMPS_COPY_DOUBLE_COMPLEX( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to COMPLEX(8) mpi.f:577:44: CALL MUMPS_COPY_2DOUBLE_PRECISION( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to REAL(8) mpi.f:581:34: CALL MUMPS_COPY_INTEGER8( SENDBUF, RECVBUF, COUNT ) 1 Warning: Type mismatch in argument ‘s’ at (1); passed INTEGER(4) to INTEGER(8) cana_driver.F:1281:17: & id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) cana_driver.F:1293:30: & id%KEEP(28), id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) cana_driver.F:1786:14: & id%CANDIDATES(1,1), id%I_AM_CAND(1) ) 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘candidates’ at (1) cfac_distrib_ELT.F:193:21: & id%ELTVAR( IELTPTR8 ), id%A_ELT( RELTPTR8 ), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘eltvar’ at (1) cfac_distrib_ELT.F:211:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) cfac_distrib_ELT.F:219:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) cfac_distrib_ELT.F:251:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) cfac_process_band.F:238:46: CALL CMUMPS_PROCESS_DESC_BANDE( MYID, DESCBAND_STRUC%BUFR(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘bufr’ at (1) cfac_process_blocfacto.F:231:35: & BLR_U(1), NB_BLR_U, KEEP(470), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘blr_u’ at (1) ctype3_root.F:405:14: & root%SCHUR_POINTER(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘val_root’ at (1) ctype3_root.F:445:14: & root%RG2L_ROW(1), root%RG2L_COL(1), TRANSPOSE_ASM, 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘rg2l_row’ at (1) zana_driver.F:1281:17: & id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) zana_driver.F:1293:30: & id%KEEP(28), id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) zana_driver.F:1786:14: & id%CANDIDATES(1,1), id%I_AM_CAND(1) ) 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘candidates’ at (1) zfac_distrib_ELT.F:193:21: & id%ELTVAR( IELTPTR8 ), id%A_ELT( RELTPTR8 ), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘eltvar’ at (1) zfac_distrib_ELT.F:211:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) zfac_distrib_ELT.F:219:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) zfac_distrib_ELT.F:251:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) zfac_process_band.F:238:46: CALL ZMUMPS_PROCESS_DESC_BANDE( MYID, DESCBAND_STRUC%BUFR(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘bufr’ at (1) zfac_process_blocfacto.F:231:35: & BLR_U(1), NB_BLR_U, KEEP(470), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘blr_u’ at (1) ztype3_root.F:405:14: & root%SCHUR_POINTER(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘val_root’ at (1) ztype3_root.F:445:14: & root%RG2L_ROW(1), root%RG2L_COL(1), TRANSPOSE_ASM, 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘rg2l_row’ at (1) sana_driver.F:1281:17: & id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) sana_driver.F:1293:30: & id%KEEP(28), id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) sana_driver.F:1786:14: & id%CANDIDATES(1,1), id%I_AM_CAND(1) ) 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘candidates’ at (1) sfac_distrib_ELT.F:193:21: & id%ELTVAR( IELTPTR8 ), id%A_ELT( RELTPTR8 ), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘eltvar’ at (1) sfac_distrib_ELT.F:211:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) sfac_distrib_ELT.F:219:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) sfac_distrib_ELT.F:251:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) sfac_process_band.F:238:46: CALL SMUMPS_PROCESS_DESC_BANDE( MYID, DESCBAND_STRUC%BUFR(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘bufr’ at (1) sfac_process_blocfacto.F:231:35: & BLR_U(1), NB_BLR_U, KEEP(470), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘blr_u’ at (1) stype3_root.F:405:14: & root%SCHUR_POINTER(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘val_root’ at (1) stype3_root.F:445:14: & root%RG2L_ROW(1), root%RG2L_COL(1), TRANSPOSE_ASM, 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘rg2l_row’ at (1) dana_driver.F:1281:17: & id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) dana_driver.F:1293:30: & id%KEEP(28), id%IRN(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘irn’ at (1) dana_driver.F:1786:14: & id%CANDIDATES(1,1), id%I_AM_CAND(1) ) 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘candidates’ at (1) dfac_distrib_ELT.F:193:21: & id%ELTVAR( IELTPTR8 ), id%A_ELT( RELTPTR8 ), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘eltvar’ at (1) dfac_distrib_ELT.F:211:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) dfac_distrib_ELT.F:219:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) dfac_distrib_ELT.F:251:17: & id%ELTVAR(IELTPTR8), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘elnodes’ at (1) dfac_process_band.F:238:46: CALL DMUMPS_PROCESS_DESC_BANDE( MYID, DESCBAND_STRUC%BUFR(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘bufr’ at (1) dfac_process_blocfacto.F:231:35: & BLR_U(1), NB_BLR_U, KEEP(470), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘blr_u’ at (1) dtype3_root.F:405:14: & root%SCHUR_POINTER(1), 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘val_root’ at (1) dtype3_root.F:445:14: & root%RG2L_ROW(1), root%RG2L_COL(1), TRANSPOSE_ASM, 1 Warning: Element of assumed-shaped or pointer array passed to array dummy argument ‘rg2l_row’ at (1) ********End of Output of running make on MUMPS ******* Checking for library in Download MUMPS: ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a'] Contents: ['include', 'tests', 'bin', 'Makefile', 'cmake_install.cmake', 'obj', 'CMakeCache.txt', 'externalpackages', 'lib', 'CMakeFiles', 'initial_cache_file.cmake'] ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [dmumps_c] in library ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a'] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char dmumps_c(); static void _check_dmumps_c() { dmumps_c(); } #ifdef __cplusplus } #endif int main() { _check_dmumps_c();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_f77.o): In function `dmumps_f77_': dmumps_f77.F:(.text+0x98b): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_driver.o): In function `dmumps_set_infog_': dmumps_driver.F:(.text+0xa0): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0xec): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x121): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x159): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_driver.o): In function `dmumps_': dmumps_driver.F:(.text+0x246d): undefined reference to `mpi_initialized_' dmumps_driver.F:(.text+0x2532): undefined reference to `mpi_comm_dup_' dmumps_driver.F:(.text+0x25b3): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x25fd): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x2647): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x2691): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x285f): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x351c): undefined reference to `mpi_comm_rank_' dmumps_driver.F:(.text+0x6dae): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x831d): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x851e): undefined reference to `mpi_comm_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o): In function `__dmumps_load_MOD_dmumps_load_process_message': dmumps_load.F:(.text+0x16ac6): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16b1c): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16bc3): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16cb9): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16d39): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o):dmumps_load.F:(.text+0x16e10): more undefined references to `mpi_unpack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o): In function `__dmumps_load_MOD_dmumps_load_recv_msgs': dmumps_load.F:(.text+0x18a72): undefined reference to `mpi_iprobe_' dmumps_load.F:(.text+0x18bd4): undefined reference to `mpi_get_count_' dmumps_load.F:(.text+0x18ccb): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o): In function `__dmumps_load_MOD_dmumps_load_init': dmumps_load.F:(.text+0x1b8ee): undefined reference to `mpi_comm_rank_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_ooc.o): In function `__dmumps_ooc_MOD_dmumps_ooc_init_solve': dmumps_ooc.F:(.text+0x14985): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dini_driver.o): In function `dmumps_ini_driver_': dini_driver.F:(.text+0x30): undefined reference to `mpi_comm_size_' dini_driver.F:(.text+0x78): undefined reference to `mpi_bcast_' dini_driver.F:(.text+0xac): undefined reference to `mpi_bcast_' dini_driver.F:(.text+0x102): undefined reference to `mpi_comm_split_' dini_driver.F:(.text+0x13e): undefined reference to `mpi_comm_dup_' dini_driver.F:(.text+0x191): undefined reference to `mpi_comm_dup_' dini_driver.F:(.text+0xba0): undefined reference to `mpi_comm_rank_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_gather_matrix_': dana_driver.F:(.text+0xfe8): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x11e0): undefined reference to `mpi_send_' dana_driver.F:(.text+0x15f5): undefined reference to `mpi_irecv_' dana_driver.F:(.text+0x16a2): undefined reference to `mpi_irecv_' dana_driver.F:(.text+0x17ad): undefined reference to `mpi_waitany_' dana_driver.F:(.text+0x1a05): undefined reference to `mpi_send_' dana_driver.F:(.text+0x1a82): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_dump_problem_': dana_driver.F:(.text+0x4fa2): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_ana_driver_': dana_driver.F:(.text+0xb0c0): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb12b): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb16e): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb1b1): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb1f4): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o):dana_driver.F:(.text+0xb2e6): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_ana_driver_': dana_driver.F:(.text+0xb590): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0xb5dc): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb621): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xe58d): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xeee1): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xef5f): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o):dana_driver.F:(.text+0xefd0): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_ana_driver_': dana_driver.F:(.text+0x16936): undefined reference to `mpi_send_' dana_driver.F:(.text+0x169aa): undefined reference to `mpi_send_' dana_driver.F:(.text+0x16a1e): undefined reference to `mpi_send_' dana_driver.F:(.text+0x16a92): undefined reference to `mpi_send_' dana_driver.F:(.text+0x16b06): undefined reference to `mpi_send_' dana_driver.F:(.text+0x17753): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x18243): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x182c3): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x18343): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x183c3): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x1941c): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0x194e7): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0x1a89a): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1b0fe): undefined reference to `numroc_' dana_driver.F:(.text+0x1b206): undefined reference to `numroc_' dana_driver.F:(.text+0x1c0ed): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1cb7c): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1cc17): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1cd8e): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_avgmax_stat8_': dfac_driver.F:(.text+0xca): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_extract_schur_redrhs_': dfac_driver.F:(.text+0x6ab): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x746): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0xb26): undefined reference to `mpi_send_' dfac_driver.F:(.text+0xbc2): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0xe2d): undefined reference to `mpi_send_' dfac_driver.F:(.text+0xeaa): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x13a7): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x1424): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0x25ae): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x2613): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x2679): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x26ea): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x28e7): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o):dfac_driver.F:(.text+0x2b13): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0x50d4): undefined reference to `mpi_comm_split_' dfac_driver.F:(.text+0x55ef): undefined reference to `mpi_comm_rank_' dfac_driver.F:(.text+0x5614): undefined reference to `mpi_comm_size_' dfac_driver.F:(.text+0x5c93): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x5cc2): undefined reference to `mpi_comm_free_' dfac_driver.F:(.text+0x6f14): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x6fbf): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x7154): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x71b9): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x721e): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o):dfac_driver.F:(.text+0x7283): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0xb05b): undefined reference to `numroc_' dfac_driver.F:(.text+0xb0d1): undefined reference to `numroc_' dfac_driver.F:(.text+0xbee2): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0xc5ad): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0xc5f8): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x100c8): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x10146): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x10bca): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10ca3): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10cf9): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10d79): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10e74): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10eea): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0x10fb6): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11048): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x1113f): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11239): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0x113aa): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x113f8): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11446): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11494): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x114e2): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o):dfac_driver.F:(.text+0x11530): more undefined references to `mpi_reduce_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0x128b7): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0x12c9f): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x12d8d): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x13016): undefined reference to `mpi_gather_' dfac_driver.F:(.text+0x1313e): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x1318b): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x1328b): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x132f6): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_pp_solve.3619': dsol_driver.F:(.text+0x304): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0x309b): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x30e8): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x3135): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x3182): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o):dsol_driver.F:(.text+0x31cf): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0x8e19): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x9417): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x945e): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x94a5): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x94ec): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x9539): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o):dsol_driver.F:(.text+0x95b0): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0xd15b): undefined reference to `mpi_send_' dsol_driver.F:(.text+0xd1cc): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0xdfb0): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0xe887): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x102fd): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1043a): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x109ef): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o):dsol_driver.F:(.text+0x10a5e): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0x12dad): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x1346c): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x14265): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x142d4): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x14aa5): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x14f67): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x15042): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x15132): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x151d4): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x15212): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x1643d): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x168a4): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x16983): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x16a6f): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x16b10): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x16fc5): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x17dfd): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x186c5): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x18a54): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x19f91): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x19fec): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1a7fd): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1aa07): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1ac3f): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1ae49): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1aea4): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1b7d6): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1bb4e): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1bf58): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1c162): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1c39a): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1ca93): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dend_driver.o): In function `dmumps_end_driver_': dend_driver.F:(.text+0xf3): undefined reference to `blacs_gridexit_' dend_driver.F:(.text+0x13c): undefined reference to `mpi_comm_free_' dend_driver.F:(.text+0x15b): undefined reference to `mpi_comm_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux.o): In function `dmumps_ana_n_par_': dana_aux.F:(.text+0x16134): undefined reference to `mpi_allreduce_' dana_aux.F:(.text+0x161aa): undefined reference to `mpi_allreduce_' dana_aux.F:(.text+0x16241): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_arrow_finish_send_buf_': darrowheads.F:(.text+0x433): undefined reference to `mpi_send_' darrowheads.F:(.text+0x497): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_arrow_fill_send_buf_': darrowheads.F:(.text+0x654): undefined reference to `mpi_send_' darrowheads.F:(.text+0x6b1): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_facto_send_arrowheads_': darrowheads.F:(.text+0x1f86): undefined reference to `numroc_' darrowheads.F:(.text+0x1fd0): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_facto_recv_arrowhd2_': darrowheads.F:(.text+0x40e6): undefined reference to `numroc_' darrowheads.F:(.text+0x4130): undefined reference to `numroc_' darrowheads.F:(.text+0x43ec): undefined reference to `mpi_recv_' darrowheads.F:(.text+0x4485): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_b.o): In function `dmumps_fac_b_': dfac_b.F:(.text+0x1021): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_distentry.o): In function `dmumps_dist_fill_buffer_': dfac_distrib_distentry.F:(.text+0x1416): undefined reference to `mpi_test_' dfac_distrib_distentry.F:(.text+0x1464): undefined reference to `mpi_iprobe_' dfac_distrib_distentry.F:(.text+0x14d3): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x1518): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x1612): undefined reference to `mpi_wait_' dfac_distrib_distentry.F:(.text+0x1708): undefined reference to `mpi_isend_' dfac_distrib_distentry.F:(.text+0x17ad): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_distentry.o): In function `dmumps_redistribution_': dfac_distrib_distentry.F:(.text+0x36bf): undefined reference to `numroc_' dfac_distrib_distentry.F:(.text+0x3717): undefined reference to `numroc_' dfac_distrib_distentry.F:(.text+0x39f8): undefined reference to `mpi_iprobe_' dfac_distrib_distentry.F:(.text+0x3a80): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x3ade): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x4967): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x49d1): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x4b02): undefined reference to `mpi_wait_' dfac_distrib_distentry.F:(.text+0x4b3f): undefined reference to `mpi_wait_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_ELT.o): In function `dmumps_elt_fill_buf_': dfac_distrib_ELT.F:(.text+0x230): undefined reference to `mpi_send_' dfac_distrib_ELT.F:(.text+0x309): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_ELT.o): In function `dmumps_elt_distrib_': dfac_distrib_ELT.F:(.text+0x16d1): undefined reference to `mpi_bcast_' dfac_distrib_ELT.F:(.text+0x205e): undefined reference to `mpi_probe_' dfac_distrib_ELT.F:(.text+0x20ac): undefined reference to `mpi_get_count_' dfac_distrib_ELT.F:(.text+0x2107): undefined reference to `mpi_recv_' dfac_distrib_ELT.F:(.text+0x2145): undefined reference to `mpi_get_count_' dfac_distrib_ELT.F:(.text+0x21a3): undefined reference to `mpi_recv_' dfac_distrib_ELT.F:(.text+0x2292): undefined reference to `numroc_' dfac_distrib_ELT.F:(.text+0x22e8): undefined reference to `numroc_' dfac_distrib_ELT.F:(.text+0x315b): undefined reference to `mpi_recv_' dfac_distrib_ELT.F:(.text+0x3202): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_mem_compress_cb.o): In function `dmumps_compre_new_': dfac_mem_compress_cb.F:(.text+0xa13): undefined reference to `mpi_wtime_' dfac_mem_compress_cb.F:(.text+0x16be): undefined reference to `mpi_wtime_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_recv_and_treat_': dfac_process_message.F:(.text+0x675): undefined reference to `mpi_get_count_' dfac_process_message.F:(.text+0x7e2): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_traiter_message_': dfac_process_message.F:(.text+0x107c): undefined reference to `mpi_unpack_' dfac_process_message.F:(.text+0x236b): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_try_recvtreat_': dfac_process_message.F:(.text+0x386d): undefined reference to `mpi_wait_' dfac_process_message.F:(.text+0x3927): undefined reference to `mpi_probe_' dfac_process_message.F:(.text+0x394f): undefined reference to `mpi_test_' dfac_process_message.F:(.text+0x3ab6): undefined reference to `mpi_get_count_' dfac_process_message.F:(.text+0x3cc1): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x3e94): undefined reference to `mpi_probe_' dfac_process_message.F:(.text+0x3edd): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x4129): undefined reference to `mpi_irecv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_cancel_irecv_': dfac_process_message.F:(.text+0x41c7): undefined reference to `mpi_test_' dfac_process_message.F:(.text+0x41fa): undefined reference to `mpi_barrier_' dfac_process_message.F:(.text+0x4282): undefined reference to `mpi_recv_' dfac_process_message.F:(.text+0x42a4): undefined reference to `mpi_wait_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_clean_pending_': dfac_process_message.F:(.text+0x439d): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x43eb): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x445f): undefined reference to `mpi_get_count_' dfac_process_message.F:(.text+0x44ab): undefined reference to `mpi_recv_' dfac_process_message.F:(.text+0x453a): undefined reference to `mpi_allreduce_' dfac_process_message.F:(.text+0x45aa): undefined reference to `mpi_allreduce_' dfac_process_message.F:(.text+0x4602): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_root2slave.o): In function `dmumps_process_root2slave_': dfac_process_root2slave.F:(.text+0x57e): undefined reference to `numroc_' dfac_process_root2slave.F:(.text+0x5de): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings.o): In function `dmumps_anorminf_': dfac_scalings.F:(.text+0x263f): undefined reference to `mpi_reduce_' dfac_scalings.F:(.text+0x268d): undefined reference to `mpi_reduce_' dfac_scalings.F:(.text+0x28a0): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_determinant.o): In function `dmumps_deter_reduction_': dfac_determinant.F:(.text+0x552): undefined reference to `mpi_type_contiguous_' dfac_determinant.F:(.text+0x56a): undefined reference to `mpi_type_commit_' dfac_determinant.F:(.text+0x593): undefined reference to `mpi_op_create_' dfac_determinant.F:(.text+0x5ed): undefined reference to `mpi_allreduce_' dfac_determinant.F:(.text+0x609): undefined reference to `mpi_op_free_' dfac_determinant.F:(.text+0x621): undefined reference to `mpi_type_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScaleAbs.o): In function `dmumps_simscaleabssym_': dfac_scalings_simScaleAbs.F:(.text+0xf7e): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x1707): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x19ba): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScaleAbs.o): In function `dmumps_simscaleabsuns_': dfac_scalings_simScaleAbs.F:(.text+0x3311): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x3e32): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x42b5): undefined reference to `mpi_reduce_' dfac_scalings_simScaleAbs.F:(.text+0x4374): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_createpartvec_': dfac_scalings_simScale_util.F:(.text+0x2ae): undefined reference to `mpi_op_create_' dfac_scalings_simScale_util.F:(.text+0x42f): undefined reference to `mpi_allreduce_' dfac_scalings_simScale_util.F:(.text+0x49c): undefined reference to `mpi_op_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_chkconvglo_': dfac_scalings_simScale_util.F:(.text+0xf21): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_numvolsndrcv_': dfac_scalings_simScale_util.F:(.text+0x1a9e): undefined reference to `mpi_alltoall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_setupcomms_': dfac_scalings_simScale_util.F:(.text+0x210c): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x21e8): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x22e4): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x23e0): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x242a): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x2448): undefined reference to `mpi_barrier_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_docomminf_': dfac_scalings_simScale_util.F:(.text+0x27b4): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x2955): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x299f): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x2bd0): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x2d86): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x2dca): undefined reference to `mpi_waitall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_docomm1n_': dfac_scalings_simScale_util.F:(.text+0x321d): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x33be): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x3408): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x361d): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x37d3): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x3817): undefined reference to `mpi_waitall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_createpartvecsym_': dfac_scalings_simScale_util.F:(.text+0x3a1e): undefined reference to `mpi_op_create_' dfac_scalings_simScale_util.F:(.text+0x3bce): undefined reference to `mpi_allreduce_' dfac_scalings_simScale_util.F:(.text+0x3c3b): undefined reference to `mpi_op_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_numvolsndrcvsym_': dfac_scalings_simScale_util.F:(.text+0x4015): undefined reference to `mpi_alltoall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_chkconvglosym_': dfac_scalings_simScale_util.F:(.text+0x4446): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_setupcommssym_': dfac_scalings_simScale_util.F:(.text+0x4d93): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x4e6f): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x4f6b): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x5067): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x50b1): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x50cf): undefined reference to `mpi_barrier_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_aux.o): In function `dmumps_build_mapping_info_': dsol_aux.F:(.text+0x42f9): undefined reference to `mpi_send_' dsol_aux.F:(.text+0x433a): undefined reference to `mpi_send_' dsol_aux.F:(.text+0x486e): undefined reference to `mpi_recv_' dsol_aux.F:(.text+0x4db3): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_sol_c_': dsol_c.F:(.text+0x29d0): undefined reference to `mpi_barrier_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_npiv_block_send.4483': dsol_c.F:(.text+0x5a33): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x5a7d): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_gather_solution_': dsol_c.F:(.text+0x6992): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x69d6): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x6eba): undefined reference to `mpi_recv_' dsol_c.F:(.text+0x6f29): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x6fa2): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x707f): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x72af): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_npiv_block_add.4485': dsol_c.F:(.text+0x7b7a): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x7bda): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x7c9b): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_am1_block_send.4945': dsol_c.F:(.text+0x7d66): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x7da4): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_gather_solution_am1_': dsol_c.F:(.text+0x84ab): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x84ef): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x89bb): undefined reference to `mpi_recv_' dsol_c.F:(.text+0x8a21): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x8aa4): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x8b28): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x8c33): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_am1_block_add.4947': dsol_c.F:(.text+0x8dff): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x8e41): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x8e91): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_get_buf_indx_rhs.5707': dsol_c.F:(.text+0x9bf1): undefined reference to `mpi_send_' dsol_c.F:(.text+0x9c67): undefined reference to `mpi_recv_' dsol_c.F:(.text+0x9dd6): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_scatter_rhs_': dsol_c.F:(.text+0xa970): undefined reference to `mpi_recv_' dsol_c.F:(.text+0xa9b1): undefined reference to `mpi_get_count_' dsol_c.F:(.text+0xab61): undefined reference to `mpi_send_' dsol_c.F:(.text+0xabe5): undefined reference to `mpi_recv_' dsol_c.F:(.text+0xac26): undefined reference to `mpi_get_count_' dsol_c.F:(.text+0xadaa): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_root_parallel.o): In function `dmumps_solve_2d_bcyclic_': dsol_root_parallel.F:(.text+0x136): undefined reference to `descinit_' dsol_root_parallel.F:(.text+0x256): undefined reference to `pdgetrs_' dsol_root_parallel.F:(.text+0x2bc): undefined reference to `pdgetrs_' dsol_root_parallel.F:(.text+0x320): undefined reference to `pdpotrs_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_root_parallel.o): In function `dmumps_root_solve_': dsol_root_parallel.F:(.text+0x4bc): undefined reference to `blacs_gridinfo_' dsol_root_parallel.F:(.text+0x4e6): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_root_alloc_static_': dtype3_root.F:(.text+0x11c3): undefined reference to `numroc_' dtype3_root.F:(.text+0x1219): undefined reference to `numroc_' dtype3_root.F:(.text+0x1272): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_init_root_ana_': dtype3_root.F:(.text+0x6592): undefined reference to `blacs_gridexit_' dtype3_root.F:(.text+0x65df): undefined reference to `blacs_gridinit_' dtype3_root.F:(.text+0x661d): undefined reference to `blacs_gridinfo_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_scatter_root_': dtype3_root.F:(.text+0x6fd5): undefined reference to `mpi_ssend_' dtype3_root.F:(.text+0x705c): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_gather_root_': dtype3_root.F:(.text+0x778a): undefined reference to `mpi_recv_' dtype3_root.F:(.text+0x795e): undefined reference to `mpi_ssend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_send_buf': dana_aux_par.F:(.text+0xc30): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0xc52): undefined reference to `mpi_comm_size_' dana_aux_par.F:(.text+0x1554): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x169f): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0x182d): undefined reference to `mpi_alltoall_' dana_aux_par.F:(.text+0x1a3b): undefined reference to `mpi_isend_' dana_aux_par.F:(.text+0x1b39): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x1c58): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0x1edf): undefined reference to `mpi_test_' dana_aux_par.F:(.text+0x1f5a): undefined reference to `mpi_iprobe_' dana_aux_par.F:(.text+0x1fea): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x2280): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_build_loc_graph': dana_aux_par.F:(.text+0x2609): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0x262e): undefined reference to `mpi_comm_size_' dana_aux_par.F:(.text+0x368f): undefined reference to `mpi_alltoall_' dana_aux_par.F:(.text+0x38a8): undefined reference to `mpi_reduce_scatter_' dana_aux_par.F:(.text+0x40c6): undefined reference to `mpi_iprobe_' dana_aux_par.F:(.text+0x4154): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x5ada): undefined reference to `mpi_gather_' dana_aux_par.F:(.text+0x5fb7): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x6042): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x619e): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0x621f): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_parsymfact': dana_aux_par.F:(.text+0x7d44): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0x7d69): undefined reference to `mpi_comm_size_' dana_aux_par.F:(.text+0x8ce3): undefined reference to `mpi_reduce_' dana_aux_par.F:(.text+0x8def): undefined reference to `mpi_gather_' dana_aux_par.F:(.text+0x9256): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x9345): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x97f9): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0x987c): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0xa316): undefined reference to `mpi_barrier_' dana_aux_par.F:(.text+0xa334): undefined reference to `mpi_barrier_' dana_aux_par.F:(.text+0xac18): undefined reference to `mpi_irecv_' dana_aux_par.F:(.text+0xad30): undefined reference to `mpi_irecv_' dana_aux_par.F:(.text+0xb119): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0xb13e): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0xbaf9): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0xbbec): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_set_par_ord': dana_aux_par.F:(.text+0xe3aa): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_ana_f_par': dana_aux_par.F:(.text+0xe7d0): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0xe7f2): undefined reference to `mpi_comm_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_mumps_mpi_pack_scale_lr': dmumps_comm_buffer.F:(.text+0x2a0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x73a): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x7d3): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x862): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x8f1): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x980): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_mumps_mpi_pack_size_lr': dmumps_comm_buffer.F:(.text+0x302c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x30d8): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3236): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x32e2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3393): undefined reference to `mpi_pack_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x362a): more undefined references to `mpi_pack_size_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_bcast_array': dmumps_comm_buffer.F:(.text+0x37e6): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x3855): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x38c1): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x392d): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x3999): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x3a12): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_bcast_array': dmumps_comm_buffer.F:(.text+0x3b95): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_not_mstr': dmumps_comm_buffer.F:(.text+0x3ddb): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3e08): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3f8f): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x3ffb): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x40ef): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_fils': dmumps_comm_buffer.F:(.text+0x430b): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x433d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x44ac): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4515): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x45a0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4609): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x46be): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_broadcast': dmumps_comm_buffer.F:(.text+0x4a34): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x4a8a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x4c04): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4c6d): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4cf2): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4df8): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_update_load': dmumps_comm_buffer.F:(.text+0x509d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x510c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x528a): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x52f3): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5363): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x53d6): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5449): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x554c): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_backvec': dmumps_comm_buffer.F:(.text+0x5773): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x57b2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x5868): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x58ce): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5931): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5994): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5a2f): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5ae5): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_root2slave': dmumps_comm_buffer.F:(.text+0x5df2): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_root2son': dmumps_comm_buffer.F:(.text+0x6023): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_rtnelind': dmumps_comm_buffer.F:(.text+0x6465): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type3': dmumps_comm_buffer.F:(.text+0x6732): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x6797): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x67c7): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x6823): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x6978): undefined reference to `mpi_pack_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x69cf): more undefined references to `mpi_pack_size_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type3': dmumps_comm_buffer.F:(.text+0x6bd5): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6c47): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6cb9): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6d2b): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6d9d): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x6e12): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type3': dmumps_comm_buffer.F:(.text+0x8280): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blfac_slave': dmumps_comm_buffer.F:(.text+0x8537): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x856e): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x85cb): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x863c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x87e5): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x884e): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x88b7): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x8920): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x8989): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x89ec): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blfac_slave': dmumps_comm_buffer.F:(.text+0x8d27): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blocfacto': dmumps_comm_buffer.F:(.text+0x9090): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x90e9): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x9150): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x91a6): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x91e0): undefined reference to `mpi_pack_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x922a): more undefined references to `mpi_pack_size_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blocfacto': dmumps_comm_buffer.F:(.text+0x96fa): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x9796): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x9820): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x98af): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x991b): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x998a): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blocfacto': dmumps_comm_buffer.F:(.text+0xa105): undefined reference to `mpi_isend_' dmumps_comm_buffer.F:(.text+0xa1bb): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_maplig': dmumps_comm_buffer.F:(.text+0xaa11): undefined reference to `mpi_isend_' dmumps_comm_buffer.F:(.text+0xb130): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type2': dmumps_comm_buffer.F:(.text+0xb61d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xb657): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xb71f): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xba1d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xba4a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xbc26): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbc92): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbcfe): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbd7b): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbdec): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xbe5b): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type2': dmumps_comm_buffer.F:(.text+0xcb8e): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_maitre2': dmumps_comm_buffer.F:(.text+0xcfd3): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd01a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd06c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd1be): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd330): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd39c): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd405): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd471): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd4dd): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xd549): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_maitre2': dmumps_comm_buffer.F:(.text+0xd91e): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_desc_bande': dmumps_comm_buffer.F:(.text+0xdfbc): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_buf_look': dmumps_comm_buffer.F:(.text+0xe0a2): undefined reference to `mpi_test_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_size_available': dmumps_comm_buffer.F:(.text+0xe3e8): undefined reference to `mpi_test_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_1int': dmumps_comm_buffer.F:(.text+0xe68d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xe7e4): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xe897): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_vcb': dmumps_comm_buffer.F:(.text+0xe9f2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xea2a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xea83): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xeb39): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xebb0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xec16): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xec79): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xecdc): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xed42): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_vcb': dmumps_comm_buffer.F:(.text+0xf0c9): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_master2slave': dmumps_comm_buffer.F:(.text+0xf206): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xf24d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xf303): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf369): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf3cf): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf42f): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf492): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xf4f5): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_master2slave': dmumps_comm_buffer.F:(.text+0xf711): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_cb': dmumps_comm_buffer.F:(.text+0xf8e2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xf911): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xfaea): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xfc5b): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfcc1): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfd4a): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfdb0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfe13): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xfe8a): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_cb': dmumps_comm_buffer.F:(.text+0x103ce): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_buf_deall': dmumps_comm_buffer.F:(.text+0x105e5): undefined reference to `mpi_test_' dmumps_comm_buffer.F:(.text+0x10713): undefined reference to `mpi_cancel_' dmumps_comm_buffer.F:(.text+0x10769): undefined reference to `mpi_request_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_try_free': dmumps_comm_buffer.F:(.text+0x10eee): undefined reference to `mpi_test_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_par_m.o): In function `__dmumps_fac_par_m_MOD_dmumps_fac_par': dfac_par_m.F:(.text+0x341f): undefined reference to `mpi_barrier_' dfac_par_m.F:(.text+0x43a0): undefined reference to `numroc_' dfac_par_m.F:(.text+0x4524): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_blfac_slave.o): In function `dmumps_process_blfac_slave_': dfac_process_blfac_slave.F:(.text+0x6ec): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x735): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x77e): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x7c7): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x8b9): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_blfac_slave.o):dfac_process_blfac_slave.F:(.text+0x902): more undefined references to `mpi_unpack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_root_parallel.o): In function `dmumps_facto_root_': dfac_root_parallel.F:(.text+0x687): undefined reference to `descinit_' dfac_root_parallel.F:(.text+0x9c0): undefined reference to `pdgetrf_' dfac_root_parallel.F:(.text+0xa4a): undefined reference to `pdpotrf_' dfac_root_parallel.F:(.text+0xeee): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_type3_symmetrize.o): In function `dmumps_recv_block_': dfac_type3_symmetrize.F:(.text+0x90): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_type3_symmetrize.o): In function `dmumps_send_block_': dfac_type3_symmetrize.F:(.text+0x26d): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_fwd_aux.o): In function `dmumps_solve_recv_and_treat_': dsol_fwd_aux.F:(.text+0x33d): undefined reference to `mpi_probe_' dsol_fwd_aux.F:(.text+0x389): undefined reference to `mpi_iprobe_' dsol_fwd_aux.F:(.text+0x3f8): undefined reference to `mpi_get_count_' dsol_fwd_aux.F:(.text+0x49d): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_fwd_aux.o): In function `dmumps_traiter_message_solve_': dsol_fwd_aux.F:(.text+0x92e): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0x974): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0x9ba): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0xa00): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0xa46): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_fwd_aux.o):dsol_fwd_aux.F:(.text+0xa8c): more undefined references to `mpi_unpack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_bwd_aux.o): In function `dmumps_backslv_recv_and_treat_': dsol_bwd_aux.F:(.text+0x4c51): undefined reference to `mpi_probe_' dsol_bwd_aux.F:(.text+0x4c9d): undefined reference to `mpi_iprobe_' dsol_bwd_aux.F:(.text+0x4d0c): undefined reference to `mpi_get_count_' dsol_bwd_aux.F:(.text+0x4dab): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(mumps_static_mapping.o): In function `__mumps_static_mapping_MOD_mumps_compute_distrib': mumps_static_mapping.F:(.text+0x206a): undefined reference to `mpi_get_processor_name_' mumps_static_mapping.F:(.text+0x22c4): undefined reference to `mpi_bcast_' mumps_static_mapping.F:(.text+0x2653): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(mumps_static_mapping.o): In function `__mumps_static_mapping_MOD_mumps_init_arch_parameters': mumps_static_mapping.F:(.text+0x33ad): undefined reference to `mpi_comm_rank_' mumps_static_mapping.F:(.text+0x33ee): undefined reference to `mpi_comm_rank_' mumps_static_mapping.F:(.text+0x3813): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(bcast_errors.o): In function `mumps_propinfo_': bcast_errors.F:(.text+0x69): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_abort_': tools_common.F:(.text+0x27): undefined reference to `mpi_abort_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_secdeb_': tools_common.F:(.text+0x73c): undefined reference to `mpi_wtime_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_secfin_': tools_common.F:(.text+0x761): undefined reference to `mpi_wtime_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_mem_centralize_': tools_common.F:(.text+0xb06): undefined reference to `mpi_reduce_' tools_common.F:(.text+0xb50): undefined reference to `mpi_reduce_' tools_common.F:(.text+0xba8): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_bcast_i8_': tools_common.F:(.text+0x142f): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_reducei8_': tools_common.F:(.text+0x14b6): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_allreducei8_': tools_common.F:(.text+0x153e): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_get_proc_per_node_': tools_common.F:(.text+0x27d1): undefined reference to `mpi_get_processor_name_' tools_common.F:(.text+0x29fa): undefined reference to `mpi_bcast_' tools_common.F:(.text+0x2d66): undefined reference to `mpi_bcast_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for library in Download MUMPS: ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a', 'libpthread.a'] Contents: ['include', 'tests', 'bin', 'Makefile', 'cmake_install.cmake', 'obj', 'CMakeCache.txt', 'externalpackages', 'lib', 'CMakeFiles', 'initial_cache_file.cmake'] ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [dmumps_c] in library ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a', 'libpthread.a'] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char dmumps_c(); static void _check_dmumps_c() { dmumps_c(); } #ifdef __cplusplus } #endif int main() { _check_dmumps_c();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lpthread -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_f77.o): In function `dmumps_f77_': dmumps_f77.F:(.text+0x98b): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_driver.o): In function `dmumps_set_infog_': dmumps_driver.F:(.text+0xa0): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0xec): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x121): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x159): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_driver.o): In function `dmumps_': dmumps_driver.F:(.text+0x246d): undefined reference to `mpi_initialized_' dmumps_driver.F:(.text+0x2532): undefined reference to `mpi_comm_dup_' dmumps_driver.F:(.text+0x25b3): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x25fd): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x2647): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x2691): undefined reference to `mpi_allreduce_' dmumps_driver.F:(.text+0x285f): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x351c): undefined reference to `mpi_comm_rank_' dmumps_driver.F:(.text+0x6dae): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x831d): undefined reference to `mpi_bcast_' dmumps_driver.F:(.text+0x851e): undefined reference to `mpi_comm_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o): In function `__dmumps_load_MOD_dmumps_load_process_message': dmumps_load.F:(.text+0x16ac6): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16b1c): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16bc3): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16cb9): undefined reference to `mpi_unpack_' dmumps_load.F:(.text+0x16d39): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o):dmumps_load.F:(.text+0x16e10): more undefined references to `mpi_unpack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o): In function `__dmumps_load_MOD_dmumps_load_recv_msgs': dmumps_load.F:(.text+0x18a72): undefined reference to `mpi_iprobe_' dmumps_load.F:(.text+0x18bd4): undefined reference to `mpi_get_count_' dmumps_load.F:(.text+0x18ccb): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_load.o): In function `__dmumps_load_MOD_dmumps_load_init': dmumps_load.F:(.text+0x1b8ee): undefined reference to `mpi_comm_rank_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_ooc.o): In function `__dmumps_ooc_MOD_dmumps_ooc_init_solve': dmumps_ooc.F:(.text+0x14985): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dini_driver.o): In function `dmumps_ini_driver_': dini_driver.F:(.text+0x30): undefined reference to `mpi_comm_size_' dini_driver.F:(.text+0x78): undefined reference to `mpi_bcast_' dini_driver.F:(.text+0xac): undefined reference to `mpi_bcast_' dini_driver.F:(.text+0x102): undefined reference to `mpi_comm_split_' dini_driver.F:(.text+0x13e): undefined reference to `mpi_comm_dup_' dini_driver.F:(.text+0x191): undefined reference to `mpi_comm_dup_' dini_driver.F:(.text+0xba0): undefined reference to `mpi_comm_rank_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_gather_matrix_': dana_driver.F:(.text+0xfe8): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x11e0): undefined reference to `mpi_send_' dana_driver.F:(.text+0x15f5): undefined reference to `mpi_irecv_' dana_driver.F:(.text+0x16a2): undefined reference to `mpi_irecv_' dana_driver.F:(.text+0x17ad): undefined reference to `mpi_waitany_' dana_driver.F:(.text+0x1a05): undefined reference to `mpi_send_' dana_driver.F:(.text+0x1a82): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_dump_problem_': dana_driver.F:(.text+0x4fa2): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_ana_driver_': dana_driver.F:(.text+0xb0c0): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb12b): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb16e): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb1b1): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb1f4): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o):dana_driver.F:(.text+0xb2e6): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_ana_driver_': dana_driver.F:(.text+0xb590): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0xb5dc): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xb621): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xe58d): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xeee1): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0xef5f): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o):dana_driver.F:(.text+0xefd0): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_driver.o): In function `dmumps_ana_driver_': dana_driver.F:(.text+0x16936): undefined reference to `mpi_send_' dana_driver.F:(.text+0x169aa): undefined reference to `mpi_send_' dana_driver.F:(.text+0x16a1e): undefined reference to `mpi_send_' dana_driver.F:(.text+0x16a92): undefined reference to `mpi_send_' dana_driver.F:(.text+0x16b06): undefined reference to `mpi_send_' dana_driver.F:(.text+0x17753): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x18243): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x182c3): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x18343): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x183c3): undefined reference to `mpi_recv_' dana_driver.F:(.text+0x1941c): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0x194e7): undefined reference to `mpi_bcast_' dana_driver.F:(.text+0x1a89a): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1b0fe): undefined reference to `numroc_' dana_driver.F:(.text+0x1b206): undefined reference to `numroc_' dana_driver.F:(.text+0x1c0ed): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1cb7c): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1cc17): undefined reference to `mpi_allreduce_' dana_driver.F:(.text+0x1cd8e): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_avgmax_stat8_': dfac_driver.F:(.text+0xca): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_extract_schur_redrhs_': dfac_driver.F:(.text+0x6ab): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x746): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0xb26): undefined reference to `mpi_send_' dfac_driver.F:(.text+0xbc2): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0xe2d): undefined reference to `mpi_send_' dfac_driver.F:(.text+0xeaa): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x13a7): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x1424): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0x25ae): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x2613): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x2679): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x26ea): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x28e7): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o):dfac_driver.F:(.text+0x2b13): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0x50d4): undefined reference to `mpi_comm_split_' dfac_driver.F:(.text+0x55ef): undefined reference to `mpi_comm_rank_' dfac_driver.F:(.text+0x5614): undefined reference to `mpi_comm_size_' dfac_driver.F:(.text+0x5c93): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x5cc2): undefined reference to `mpi_comm_free_' dfac_driver.F:(.text+0x6f14): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x6fbf): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x7154): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x71b9): undefined reference to `mpi_bcast_' dfac_driver.F:(.text+0x721e): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o):dfac_driver.F:(.text+0x7283): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0xb05b): undefined reference to `numroc_' dfac_driver.F:(.text+0xb0d1): undefined reference to `numroc_' dfac_driver.F:(.text+0xbee2): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0xc5ad): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0xc5f8): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x100c8): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x10146): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x10bca): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10ca3): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10cf9): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10d79): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10e74): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x10eea): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0x10fb6): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11048): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x1113f): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11239): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0x113aa): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x113f8): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11446): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x11494): undefined reference to `mpi_reduce_' dfac_driver.F:(.text+0x114e2): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o):dfac_driver.F:(.text+0x11530): more undefined references to `mpi_reduce_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_driver.o): In function `dmumps_fac_driver_': dfac_driver.F:(.text+0x128b7): undefined reference to `mpi_allreduce_' dfac_driver.F:(.text+0x12c9f): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x12d8d): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x13016): undefined reference to `mpi_gather_' dfac_driver.F:(.text+0x1313e): undefined reference to `mpi_recv_' dfac_driver.F:(.text+0x1318b): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x1328b): undefined reference to `mpi_send_' dfac_driver.F:(.text+0x132f6): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_pp_solve.3619': dsol_driver.F:(.text+0x304): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0x309b): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x30e8): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x3135): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x3182): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o):dsol_driver.F:(.text+0x31cf): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0x8e19): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x9417): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x945e): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x94a5): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x94ec): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x9539): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o):dsol_driver.F:(.text+0x95b0): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0xd15b): undefined reference to `mpi_send_' dsol_driver.F:(.text+0xd1cc): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0xdfb0): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0xe887): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x102fd): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1043a): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x109ef): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o):dsol_driver.F:(.text+0x10a5e): more undefined references to `mpi_bcast_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_driver.o): In function `dmumps_solve_driver_': dsol_driver.F:(.text+0x12dad): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x1346c): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x14265): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x142d4): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x14aa5): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x14f67): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x15042): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x15132): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x151d4): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x15212): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x1643d): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x168a4): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x16983): undefined reference to `mpi_recv_' dsol_driver.F:(.text+0x16a6f): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x16b10): undefined reference to `mpi_send_' dsol_driver.F:(.text+0x16fc5): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x17dfd): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x186c5): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x18a54): undefined reference to `mpi_wtime_' dsol_driver.F:(.text+0x19f91): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x19fec): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1a7fd): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1aa07): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1ac3f): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1ae49): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1aea4): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1b7d6): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1bb4e): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1bf58): undefined reference to `mpi_bcast_' dsol_driver.F:(.text+0x1c162): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1c39a): undefined reference to `mpi_reduce_' dsol_driver.F:(.text+0x1ca93): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dend_driver.o): In function `dmumps_end_driver_': dend_driver.F:(.text+0xf3): undefined reference to `blacs_gridexit_' dend_driver.F:(.text+0x13c): undefined reference to `mpi_comm_free_' dend_driver.F:(.text+0x15b): undefined reference to `mpi_comm_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux.o): In function `dmumps_ana_n_par_': dana_aux.F:(.text+0x16134): undefined reference to `mpi_allreduce_' dana_aux.F:(.text+0x161aa): undefined reference to `mpi_allreduce_' dana_aux.F:(.text+0x16241): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_arrow_finish_send_buf_': darrowheads.F:(.text+0x433): undefined reference to `mpi_send_' darrowheads.F:(.text+0x497): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_arrow_fill_send_buf_': darrowheads.F:(.text+0x654): undefined reference to `mpi_send_' darrowheads.F:(.text+0x6b1): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_facto_send_arrowheads_': darrowheads.F:(.text+0x1f86): undefined reference to `numroc_' darrowheads.F:(.text+0x1fd0): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(darrowheads.o): In function `dmumps_facto_recv_arrowhd2_': darrowheads.F:(.text+0x40e6): undefined reference to `numroc_' darrowheads.F:(.text+0x4130): undefined reference to `numroc_' darrowheads.F:(.text+0x43ec): undefined reference to `mpi_recv_' darrowheads.F:(.text+0x4485): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_b.o): In function `dmumps_fac_b_': dfac_b.F:(.text+0x1021): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_distentry.o): In function `dmumps_dist_fill_buffer_': dfac_distrib_distentry.F:(.text+0x1416): undefined reference to `mpi_test_' dfac_distrib_distentry.F:(.text+0x1464): undefined reference to `mpi_iprobe_' dfac_distrib_distentry.F:(.text+0x14d3): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x1518): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x1612): undefined reference to `mpi_wait_' dfac_distrib_distentry.F:(.text+0x1708): undefined reference to `mpi_isend_' dfac_distrib_distentry.F:(.text+0x17ad): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_distentry.o): In function `dmumps_redistribution_': dfac_distrib_distentry.F:(.text+0x36bf): undefined reference to `numroc_' dfac_distrib_distentry.F:(.text+0x3717): undefined reference to `numroc_' dfac_distrib_distentry.F:(.text+0x39f8): undefined reference to `mpi_iprobe_' dfac_distrib_distentry.F:(.text+0x3a80): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x3ade): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x4967): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x49d1): undefined reference to `mpi_recv_' dfac_distrib_distentry.F:(.text+0x4b02): undefined reference to `mpi_wait_' dfac_distrib_distentry.F:(.text+0x4b3f): undefined reference to `mpi_wait_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_ELT.o): In function `dmumps_elt_fill_buf_': dfac_distrib_ELT.F:(.text+0x230): undefined reference to `mpi_send_' dfac_distrib_ELT.F:(.text+0x309): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_distrib_ELT.o): In function `dmumps_elt_distrib_': dfac_distrib_ELT.F:(.text+0x16d1): undefined reference to `mpi_bcast_' dfac_distrib_ELT.F:(.text+0x205e): undefined reference to `mpi_probe_' dfac_distrib_ELT.F:(.text+0x20ac): undefined reference to `mpi_get_count_' dfac_distrib_ELT.F:(.text+0x2107): undefined reference to `mpi_recv_' dfac_distrib_ELT.F:(.text+0x2145): undefined reference to `mpi_get_count_' dfac_distrib_ELT.F:(.text+0x21a3): undefined reference to `mpi_recv_' dfac_distrib_ELT.F:(.text+0x2292): undefined reference to `numroc_' dfac_distrib_ELT.F:(.text+0x22e8): undefined reference to `numroc_' dfac_distrib_ELT.F:(.text+0x315b): undefined reference to `mpi_recv_' dfac_distrib_ELT.F:(.text+0x3202): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_mem_compress_cb.o): In function `dmumps_compre_new_': dfac_mem_compress_cb.F:(.text+0xa13): undefined reference to `mpi_wtime_' dfac_mem_compress_cb.F:(.text+0x16be): undefined reference to `mpi_wtime_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_recv_and_treat_': dfac_process_message.F:(.text+0x675): undefined reference to `mpi_get_count_' dfac_process_message.F:(.text+0x7e2): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_traiter_message_': dfac_process_message.F:(.text+0x107c): undefined reference to `mpi_unpack_' dfac_process_message.F:(.text+0x236b): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_try_recvtreat_': dfac_process_message.F:(.text+0x386d): undefined reference to `mpi_wait_' dfac_process_message.F:(.text+0x3927): undefined reference to `mpi_probe_' dfac_process_message.F:(.text+0x394f): undefined reference to `mpi_test_' dfac_process_message.F:(.text+0x3ab6): undefined reference to `mpi_get_count_' dfac_process_message.F:(.text+0x3cc1): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x3e94): undefined reference to `mpi_probe_' dfac_process_message.F:(.text+0x3edd): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x4129): undefined reference to `mpi_irecv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_cancel_irecv_': dfac_process_message.F:(.text+0x41c7): undefined reference to `mpi_test_' dfac_process_message.F:(.text+0x41fa): undefined reference to `mpi_barrier_' dfac_process_message.F:(.text+0x4282): undefined reference to `mpi_recv_' dfac_process_message.F:(.text+0x42a4): undefined reference to `mpi_wait_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_message.o): In function `dmumps_clean_pending_': dfac_process_message.F:(.text+0x439d): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x43eb): undefined reference to `mpi_iprobe_' dfac_process_message.F:(.text+0x445f): undefined reference to `mpi_get_count_' dfac_process_message.F:(.text+0x44ab): undefined reference to `mpi_recv_' dfac_process_message.F:(.text+0x453a): undefined reference to `mpi_allreduce_' dfac_process_message.F:(.text+0x45aa): undefined reference to `mpi_allreduce_' dfac_process_message.F:(.text+0x4602): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_root2slave.o): In function `dmumps_process_root2slave_': dfac_process_root2slave.F:(.text+0x57e): undefined reference to `numroc_' dfac_process_root2slave.F:(.text+0x5de): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings.o): In function `dmumps_anorminf_': dfac_scalings.F:(.text+0x263f): undefined reference to `mpi_reduce_' dfac_scalings.F:(.text+0x268d): undefined reference to `mpi_reduce_' dfac_scalings.F:(.text+0x28a0): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_determinant.o): In function `dmumps_deter_reduction_': dfac_determinant.F:(.text+0x552): undefined reference to `mpi_type_contiguous_' dfac_determinant.F:(.text+0x56a): undefined reference to `mpi_type_commit_' dfac_determinant.F:(.text+0x593): undefined reference to `mpi_op_create_' dfac_determinant.F:(.text+0x5ed): undefined reference to `mpi_allreduce_' dfac_determinant.F:(.text+0x609): undefined reference to `mpi_op_free_' dfac_determinant.F:(.text+0x621): undefined reference to `mpi_type_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScaleAbs.o): In function `dmumps_simscaleabssym_': dfac_scalings_simScaleAbs.F:(.text+0xf7e): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x1707): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x19ba): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScaleAbs.o): In function `dmumps_simscaleabsuns_': dfac_scalings_simScaleAbs.F:(.text+0x3311): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x3e32): undefined reference to `mpi_allreduce_' dfac_scalings_simScaleAbs.F:(.text+0x42b5): undefined reference to `mpi_reduce_' dfac_scalings_simScaleAbs.F:(.text+0x4374): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_createpartvec_': dfac_scalings_simScale_util.F:(.text+0x2ae): undefined reference to `mpi_op_create_' dfac_scalings_simScale_util.F:(.text+0x42f): undefined reference to `mpi_allreduce_' dfac_scalings_simScale_util.F:(.text+0x49c): undefined reference to `mpi_op_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_chkconvglo_': dfac_scalings_simScale_util.F:(.text+0xf21): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_numvolsndrcv_': dfac_scalings_simScale_util.F:(.text+0x1a9e): undefined reference to `mpi_alltoall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_setupcomms_': dfac_scalings_simScale_util.F:(.text+0x210c): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x21e8): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x22e4): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x23e0): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x242a): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x2448): undefined reference to `mpi_barrier_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_docomminf_': dfac_scalings_simScale_util.F:(.text+0x27b4): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x2955): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x299f): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x2bd0): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x2d86): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x2dca): undefined reference to `mpi_waitall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_docomm1n_': dfac_scalings_simScale_util.F:(.text+0x321d): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x33be): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x3408): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x361d): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x37d3): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x3817): undefined reference to `mpi_waitall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_createpartvecsym_': dfac_scalings_simScale_util.F:(.text+0x3a1e): undefined reference to `mpi_op_create_' dfac_scalings_simScale_util.F:(.text+0x3bce): undefined reference to `mpi_allreduce_' dfac_scalings_simScale_util.F:(.text+0x3c3b): undefined reference to `mpi_op_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_numvolsndrcvsym_': dfac_scalings_simScale_util.F:(.text+0x4015): undefined reference to `mpi_alltoall_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_chkconvglosym_': dfac_scalings_simScale_util.F:(.text+0x4446): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_scalings_simScale_util.o): In function `dmumps_setupcommssym_': dfac_scalings_simScale_util.F:(.text+0x4d93): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x4e6f): undefined reference to `mpi_barrier_' dfac_scalings_simScale_util.F:(.text+0x4f6b): undefined reference to `mpi_irecv_' dfac_scalings_simScale_util.F:(.text+0x5067): undefined reference to `mpi_send_' dfac_scalings_simScale_util.F:(.text+0x50b1): undefined reference to `mpi_waitall_' dfac_scalings_simScale_util.F:(.text+0x50cf): undefined reference to `mpi_barrier_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_aux.o): In function `dmumps_build_mapping_info_': dsol_aux.F:(.text+0x42f9): undefined reference to `mpi_send_' dsol_aux.F:(.text+0x433a): undefined reference to `mpi_send_' dsol_aux.F:(.text+0x486e): undefined reference to `mpi_recv_' dsol_aux.F:(.text+0x4db3): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_sol_c_': dsol_c.F:(.text+0x29d0): undefined reference to `mpi_barrier_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_npiv_block_send.4483': dsol_c.F:(.text+0x5a33): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x5a7d): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_gather_solution_': dsol_c.F:(.text+0x6992): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x69d6): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x6eba): undefined reference to `mpi_recv_' dsol_c.F:(.text+0x6f29): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x6fa2): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x707f): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x72af): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_npiv_block_add.4485': dsol_c.F:(.text+0x7b7a): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x7bda): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x7c9b): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_am1_block_send.4945': dsol_c.F:(.text+0x7d66): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x7da4): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_gather_solution_am1_': dsol_c.F:(.text+0x84ab): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x84ef): undefined reference to `mpi_pack_size_' dsol_c.F:(.text+0x89bb): undefined reference to `mpi_recv_' dsol_c.F:(.text+0x8a21): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x8aa4): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x8b28): undefined reference to `mpi_unpack_' dsol_c.F:(.text+0x8c33): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_am1_block_add.4947': dsol_c.F:(.text+0x8dff): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x8e41): undefined reference to `mpi_pack_' dsol_c.F:(.text+0x8e91): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_get_buf_indx_rhs.5707': dsol_c.F:(.text+0x9bf1): undefined reference to `mpi_send_' dsol_c.F:(.text+0x9c67): undefined reference to `mpi_recv_' dsol_c.F:(.text+0x9dd6): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_c.o): In function `dmumps_scatter_rhs_': dsol_c.F:(.text+0xa970): undefined reference to `mpi_recv_' dsol_c.F:(.text+0xa9b1): undefined reference to `mpi_get_count_' dsol_c.F:(.text+0xab61): undefined reference to `mpi_send_' dsol_c.F:(.text+0xabe5): undefined reference to `mpi_recv_' dsol_c.F:(.text+0xac26): undefined reference to `mpi_get_count_' dsol_c.F:(.text+0xadaa): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_root_parallel.o): In function `dmumps_solve_2d_bcyclic_': dsol_root_parallel.F:(.text+0x136): undefined reference to `descinit_' dsol_root_parallel.F:(.text+0x256): undefined reference to `pdgetrs_' dsol_root_parallel.F:(.text+0x2bc): undefined reference to `pdgetrs_' dsol_root_parallel.F:(.text+0x320): undefined reference to `pdpotrs_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_root_parallel.o): In function `dmumps_root_solve_': dsol_root_parallel.F:(.text+0x4bc): undefined reference to `blacs_gridinfo_' dsol_root_parallel.F:(.text+0x4e6): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_root_alloc_static_': dtype3_root.F:(.text+0x11c3): undefined reference to `numroc_' dtype3_root.F:(.text+0x1219): undefined reference to `numroc_' dtype3_root.F:(.text+0x1272): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_init_root_ana_': dtype3_root.F:(.text+0x6592): undefined reference to `blacs_gridexit_' dtype3_root.F:(.text+0x65df): undefined reference to `blacs_gridinit_' dtype3_root.F:(.text+0x661d): undefined reference to `blacs_gridinfo_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_scatter_root_': dtype3_root.F:(.text+0x6fd5): undefined reference to `mpi_ssend_' dtype3_root.F:(.text+0x705c): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dtype3_root.o): In function `dmumps_gather_root_': dtype3_root.F:(.text+0x778a): undefined reference to `mpi_recv_' dtype3_root.F:(.text+0x795e): undefined reference to `mpi_ssend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_send_buf': dana_aux_par.F:(.text+0xc30): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0xc52): undefined reference to `mpi_comm_size_' dana_aux_par.F:(.text+0x1554): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x169f): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0x182d): undefined reference to `mpi_alltoall_' dana_aux_par.F:(.text+0x1a3b): undefined reference to `mpi_isend_' dana_aux_par.F:(.text+0x1b39): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x1c58): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0x1edf): undefined reference to `mpi_test_' dana_aux_par.F:(.text+0x1f5a): undefined reference to `mpi_iprobe_' dana_aux_par.F:(.text+0x1fea): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x2280): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_build_loc_graph': dana_aux_par.F:(.text+0x2609): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0x262e): undefined reference to `mpi_comm_size_' dana_aux_par.F:(.text+0x368f): undefined reference to `mpi_alltoall_' dana_aux_par.F:(.text+0x38a8): undefined reference to `mpi_reduce_scatter_' dana_aux_par.F:(.text+0x40c6): undefined reference to `mpi_iprobe_' dana_aux_par.F:(.text+0x4154): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x5ada): undefined reference to `mpi_gather_' dana_aux_par.F:(.text+0x5fb7): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x6042): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x619e): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0x621f): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_parsymfact': dana_aux_par.F:(.text+0x7d44): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0x7d69): undefined reference to `mpi_comm_size_' dana_aux_par.F:(.text+0x8ce3): undefined reference to `mpi_reduce_' dana_aux_par.F:(.text+0x8def): undefined reference to `mpi_gather_' dana_aux_par.F:(.text+0x9256): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x9345): undefined reference to `mpi_recv_' dana_aux_par.F:(.text+0x97f9): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0x987c): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0xa316): undefined reference to `mpi_barrier_' dana_aux_par.F:(.text+0xa334): undefined reference to `mpi_barrier_' dana_aux_par.F:(.text+0xac18): undefined reference to `mpi_irecv_' dana_aux_par.F:(.text+0xad30): undefined reference to `mpi_irecv_' dana_aux_par.F:(.text+0xb119): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0xb13e): undefined reference to `mpi_wait_' dana_aux_par.F:(.text+0xbaf9): undefined reference to `mpi_send_' dana_aux_par.F:(.text+0xbbec): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_set_par_ord': dana_aux_par.F:(.text+0xe3aa): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dana_aux_par.o): In function `__dmumps_parallel_analysis_MOD_dmumps_ana_f_par': dana_aux_par.F:(.text+0xe7d0): undefined reference to `mpi_comm_rank_' dana_aux_par.F:(.text+0xe7f2): undefined reference to `mpi_comm_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_mumps_mpi_pack_scale_lr': dmumps_comm_buffer.F:(.text+0x2a0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x73a): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x7d3): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x862): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x8f1): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x980): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_mumps_mpi_pack_size_lr': dmumps_comm_buffer.F:(.text+0x302c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x30d8): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3236): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x32e2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3393): undefined reference to `mpi_pack_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x362a): more undefined references to `mpi_pack_size_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_bcast_array': dmumps_comm_buffer.F:(.text+0x37e6): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x3855): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x38c1): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x392d): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x3999): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x3a12): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_bcast_array': dmumps_comm_buffer.F:(.text+0x3b95): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_not_mstr': dmumps_comm_buffer.F:(.text+0x3ddb): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3e08): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x3f8f): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x3ffb): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x40ef): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_fils': dmumps_comm_buffer.F:(.text+0x430b): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x433d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x44ac): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4515): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x45a0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4609): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x46be): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_broadcast': dmumps_comm_buffer.F:(.text+0x4a34): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x4a8a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x4c04): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4c6d): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4cf2): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x4df8): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_update_load': dmumps_comm_buffer.F:(.text+0x509d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x510c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x528a): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x52f3): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5363): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x53d6): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5449): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x554c): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_backvec': dmumps_comm_buffer.F:(.text+0x5773): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x57b2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x5868): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x58ce): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5931): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5994): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5a2f): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x5ae5): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_root2slave': dmumps_comm_buffer.F:(.text+0x5df2): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_root2son': dmumps_comm_buffer.F:(.text+0x6023): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_rtnelind': dmumps_comm_buffer.F:(.text+0x6465): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type3': dmumps_comm_buffer.F:(.text+0x6732): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x6797): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x67c7): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x6823): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x6978): undefined reference to `mpi_pack_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x69cf): more undefined references to `mpi_pack_size_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type3': dmumps_comm_buffer.F:(.text+0x6bd5): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6c47): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6cb9): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6d2b): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x6d9d): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x6e12): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type3': dmumps_comm_buffer.F:(.text+0x8280): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blfac_slave': dmumps_comm_buffer.F:(.text+0x8537): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x856e): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x85cb): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x863c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x87e5): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x884e): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x88b7): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x8920): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x8989): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x89ec): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blfac_slave': dmumps_comm_buffer.F:(.text+0x8d27): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blocfacto': dmumps_comm_buffer.F:(.text+0x9090): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x90e9): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x9150): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x91a6): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0x91e0): undefined reference to `mpi_pack_size_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x922a): more undefined references to `mpi_pack_size_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blocfacto': dmumps_comm_buffer.F:(.text+0x96fa): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x9796): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x9820): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x98af): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0x991b): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0x998a): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_blocfacto': dmumps_comm_buffer.F:(.text+0xa105): undefined reference to `mpi_isend_' dmumps_comm_buffer.F:(.text+0xa1bb): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_maplig': dmumps_comm_buffer.F:(.text+0xaa11): undefined reference to `mpi_isend_' dmumps_comm_buffer.F:(.text+0xb130): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type2': dmumps_comm_buffer.F:(.text+0xb61d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xb657): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xb71f): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xba1d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xba4a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xbc26): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbc92): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbcfe): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbd7b): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xbdec): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xbe5b): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_contrib_type2': dmumps_comm_buffer.F:(.text+0xcb8e): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_maitre2': dmumps_comm_buffer.F:(.text+0xcfd3): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd01a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd06c): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd1be): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xd330): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd39c): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd405): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd471): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xd4dd): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xd549): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_maitre2': dmumps_comm_buffer.F:(.text+0xd91e): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_desc_bande': dmumps_comm_buffer.F:(.text+0xdfbc): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_buf_look': dmumps_comm_buffer.F:(.text+0xe0a2): undefined reference to `mpi_test_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_size_available': dmumps_comm_buffer.F:(.text+0xe3e8): undefined reference to `mpi_test_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_1int': dmumps_comm_buffer.F:(.text+0xe68d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xe7e4): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xe897): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_vcb': dmumps_comm_buffer.F:(.text+0xe9f2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xea2a): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xea83): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xeb39): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xebb0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xec16): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xec79): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xecdc): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xed42): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_vcb': dmumps_comm_buffer.F:(.text+0xf0c9): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_master2slave': dmumps_comm_buffer.F:(.text+0xf206): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xf24d): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xf303): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf369): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf3cf): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf42f): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xf492): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xf4f5): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_master2slave': dmumps_comm_buffer.F:(.text+0xf711): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_cb': dmumps_comm_buffer.F:(.text+0xf8e2): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xf911): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xfaea): undefined reference to `mpi_pack_size_' dmumps_comm_buffer.F:(.text+0xfc5b): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfcc1): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfd4a): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfdb0): undefined reference to `mpi_pack_' dmumps_comm_buffer.F:(.text+0xfe13): undefined reference to `mpi_pack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o):dmumps_comm_buffer.F:(.text+0xfe8a): more undefined references to `mpi_pack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_send_cb': dmumps_comm_buffer.F:(.text+0x103ce): undefined reference to `mpi_isend_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_buf_deall': dmumps_comm_buffer.F:(.text+0x105e5): undefined reference to `mpi_test_' dmumps_comm_buffer.F:(.text+0x10713): undefined reference to `mpi_cancel_' dmumps_comm_buffer.F:(.text+0x10769): undefined reference to `mpi_request_free_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dmumps_comm_buffer.o): In function `__dmumps_buf_MOD_dmumps_buf_try_free': dmumps_comm_buffer.F:(.text+0x10eee): undefined reference to `mpi_test_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_par_m.o): In function `__dmumps_fac_par_m_MOD_dmumps_fac_par': dfac_par_m.F:(.text+0x341f): undefined reference to `mpi_barrier_' dfac_par_m.F:(.text+0x43a0): undefined reference to `numroc_' dfac_par_m.F:(.text+0x4524): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_blfac_slave.o): In function `dmumps_process_blfac_slave_': dfac_process_blfac_slave.F:(.text+0x6ec): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x735): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x77e): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x7c7): undefined reference to `mpi_unpack_' dfac_process_blfac_slave.F:(.text+0x8b9): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_process_blfac_slave.o):dfac_process_blfac_slave.F:(.text+0x902): more undefined references to `mpi_unpack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_root_parallel.o): In function `dmumps_facto_root_': dfac_root_parallel.F:(.text+0x687): undefined reference to `descinit_' dfac_root_parallel.F:(.text+0x9c0): undefined reference to `pdgetrf_' dfac_root_parallel.F:(.text+0xa4a): undefined reference to `pdpotrf_' dfac_root_parallel.F:(.text+0xeee): undefined reference to `numroc_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_type3_symmetrize.o): In function `dmumps_recv_block_': dfac_type3_symmetrize.F:(.text+0x90): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dfac_type3_symmetrize.o): In function `dmumps_send_block_': dfac_type3_symmetrize.F:(.text+0x26d): undefined reference to `mpi_send_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_fwd_aux.o): In function `dmumps_solve_recv_and_treat_': dsol_fwd_aux.F:(.text+0x33d): undefined reference to `mpi_probe_' dsol_fwd_aux.F:(.text+0x389): undefined reference to `mpi_iprobe_' dsol_fwd_aux.F:(.text+0x3f8): undefined reference to `mpi_get_count_' dsol_fwd_aux.F:(.text+0x49d): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_fwd_aux.o): In function `dmumps_traiter_message_solve_': dsol_fwd_aux.F:(.text+0x92e): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0x974): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0x9ba): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0xa00): undefined reference to `mpi_unpack_' dsol_fwd_aux.F:(.text+0xa46): undefined reference to `mpi_unpack_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_fwd_aux.o):dsol_fwd_aux.F:(.text+0xa8c): more undefined references to `mpi_unpack_' follow /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libdmumps.a(dsol_bwd_aux.o): In function `dmumps_backslv_recv_and_treat_': dsol_bwd_aux.F:(.text+0x4c51): undefined reference to `mpi_probe_' dsol_bwd_aux.F:(.text+0x4c9d): undefined reference to `mpi_iprobe_' dsol_bwd_aux.F:(.text+0x4d0c): undefined reference to `mpi_get_count_' dsol_bwd_aux.F:(.text+0x4dab): undefined reference to `mpi_recv_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(mumps_static_mapping.o): In function `__mumps_static_mapping_MOD_mumps_compute_distrib': mumps_static_mapping.F:(.text+0x206a): undefined reference to `mpi_get_processor_name_' mumps_static_mapping.F:(.text+0x22c4): undefined reference to `mpi_bcast_' mumps_static_mapping.F:(.text+0x2653): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(mumps_static_mapping.o): In function `__mumps_static_mapping_MOD_mumps_init_arch_parameters': mumps_static_mapping.F:(.text+0x33ad): undefined reference to `mpi_comm_rank_' mumps_static_mapping.F:(.text+0x33ee): undefined reference to `mpi_comm_rank_' mumps_static_mapping.F:(.text+0x3813): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(bcast_errors.o): In function `mumps_propinfo_': bcast_errors.F:(.text+0x69): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_abort_': tools_common.F:(.text+0x27): undefined reference to `mpi_abort_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_secdeb_': tools_common.F:(.text+0x73c): undefined reference to `mpi_wtime_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_secfin_': tools_common.F:(.text+0x761): undefined reference to `mpi_wtime_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_mem_centralize_': tools_common.F:(.text+0xb06): undefined reference to `mpi_reduce_' tools_common.F:(.text+0xb50): undefined reference to `mpi_reduce_' tools_common.F:(.text+0xba8): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_bcast_i8_': tools_common.F:(.text+0x142f): undefined reference to `mpi_bcast_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_reducei8_': tools_common.F:(.text+0x14b6): undefined reference to `mpi_reduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_allreducei8_': tools_common.F:(.text+0x153e): undefined reference to `mpi_allreduce_' /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libmumps_common.a(tools_common.o): In function `mumps_get_proc_per_node_': tools_common.F:(.text+0x27d1): undefined reference to `mpi_get_processor_name_' tools_common.F:(.text+0x29fa): undefined reference to `mpi_bcast_' tools_common.F:(.text+0x2d66): undefined reference to `mpi_bcast_' /usr/pbs/bin/ld: link errors found, deleting executable `/tmp/petsc-ugU6A3/config.libraries/conftest' /usr/bin/sha1sum: /tmp/petsc-ugU6A3/config.libraries/conftest: No such file or directory collect2: error: ld returned 1 exit status Checking for library in Download MUMPS: ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a', 'libmpiseq.a'] Contents: ['include', 'tests', 'bin', 'Makefile', 'cmake_install.cmake', 'obj', 'CMakeCache.txt', 'externalpackages', 'lib', 'CMakeFiles', 'initial_cache_file.cmake'] ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 ================================================================================ TEST check from config.libraries(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/libraries.py:154) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:154) 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 [dmumps_c] in library ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a', 'libmpiseq.a'] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Executing: g++ -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/config.libraries/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #ifdef __cplusplus extern "C" { #endif char dmumps_c(); static void _check_dmumps_c() { dmumps_c(); } #ifdef __cplusplus } #endif int main() { _check_dmumps_c();; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/config.libraries/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.o -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl Defined "HAVE_LIBCMUMPS" to "1" Defined "HAVE_LIBDMUMPS" to "1" Defined "HAVE_LIBSMUMPS" to "1" Defined "HAVE_LIBZMUMPS" to "1" Defined "HAVE_LIBMUMPS_COMMON" to "1" Defined "HAVE_LIBPORD" to "1" Defined "HAVE_LIBMPISEQ" to "1" No functions to check for in library ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib/libcmumps.a', 'libdmumps.a', 'libsmumps.a', 'libzmumps.a', 'libmumps_common.a', 'libpord.a', 'libmpiseq.a'] ['-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '', '-L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64', '-lmkl_intel_lp64', '-lmkl_gnu_thread', '-lmkl_core', 'libm.a', '-lstdc++', '-ldl', '-lgfortran', '-lm', '-L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0', '-L/apps/cent7/gcc/5.2.0/lib64', '-L/apps/cent7/gcc/5.2.0/lib', '-lgfortran', '-lm', '-lgomp', '-lgcc_s', '-lquadmath', '-lpthread'] Checking for headers Download MUMPS: ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include'] ================================================================================ TEST checkInclude from config.headers(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/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 ['dmumps_c.h'] in ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include'] Checking include with compiler flags var CPPFLAGS ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include'] Executing: g++ -E -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.headers -std=c++11 -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include /tmp/petsc-ugU6A3/config.headers/conftest.cc Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['dmumps_c.h'] in ['/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include'] ================================================================================ TEST checkSharedLibrary from config.packages.MUMPS(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:817) TESTING: checkSharedLibrary from config.packages.MUMPS(config/BuildSystem/config/package.py:817) By default we don't care about checking if the library is shared ================================================================================ TEST alternateConfigureLibrary from config.packages.MOAB(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.MOAB(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.hypre(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.hypre(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.Trilinos(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Trilinos(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.xSDKTrilinos(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.xSDKTrilinos(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.mstk(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.mstk(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.amanzi(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.amanzi(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST alternateConfigureLibrary from config.packages.MFEM(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/packages/MFEM.py:131) TESTING: alternateConfigureLibrary from config.packages.MFEM(config/BuildSystem/config/packages/MFEM.py:131) Defined make rule "mfem-build" with dependencies "" and code [] Defined make rule "mfem-install" with dependencies "" and code [] ================================================================================ TEST alternateConfigureLibrary from config.packages.Chombo(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/BuildSystem/config/package.py:821) TESTING: alternateConfigureLibrary from config.packages.Chombo(config/BuildSystem/config/package.py:821) Called if --with-packagename=0; does nothing by default ================================================================================ TEST configureRTLDDefault from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:860) TESTING: configureRTLDDefault from PETSc.Configure(config/PETSc/Configure.py:860) All intermediate test results are stored in /tmp/petsc-ugU6A3/PETSc.Configure Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:663) TESTING: configurePrefetch from PETSc.Configure(config/PETSc/Configure.py:663) Sees if there are any prefetch functions supported Executing: uname -s stdout: Linux Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc 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; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -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" ================================================================================ TEST configureUnused from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:724) TESTING: configureUnused from PETSc.Configure(config/PETSc/Configure.py:724) Sees if __attribute((unused)) is supported Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Successful compile: 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; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "UNUSED" to "__attribute((unused))" ================================================================================ TEST configureDeprecated from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:742) TESTING: configureDeprecated from PETSc.Configure(config/PETSc/Configure.py:742) Check if __attribute((deprecated)) is supported Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Successful compile: 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))" Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc:3:16: error: expected ‘}’ before ‘__attribute’ enum E {oldval __attribute((deprecated)), newval }; ^ /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc:3:41: error: expected unqualified-id before ‘,’ token enum E {oldval __attribute((deprecated)), newval }; ^ /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc:3:50: error: expected initializer before ‘}’ token enum E {oldval __attribute((deprecated)), newval }; ^ /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc:3:50: error: expected declaration before ‘}’ token Source: #include "confdefs.h" #include "conffix.h" enum E {oldval __attribute((deprecated)), newval }; int main() { ; return 0; } Defined "DEPRECATED_ENUM(why)" to " " ================================================================================ TEST configureIsatty from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:736) TESTING: configureIsatty from PETSc.Configure(config/PETSc/Configure.py:736) 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:813) TESTING: configureExpect from PETSc.Configure(config/PETSc/Configure.py:813) Sees if the __builtin_expect directive is supported Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__builtin_expect(0,1)) return 1;; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "HAVE_BUILTIN_EXPECT" to "1" ================================================================================ TEST configureAlign from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:766) TESTING: configureAlign from PETSc.Configure(config/PETSc/Configure.py:766) Check if __attribute(align) is supported Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc 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; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-ugU6A3/PETSc.Configure/conftest to see if it can be run Executing: /tmp/petsc-ugU6A3/PETSc.Configure/conftest Executing: /tmp/petsc-ugU6A3/PETSc.Configure/conftest Defined "ATTRIBUTEALIGNED(size)" to "__attribute((aligned (size)))" Defined "HAVE_ATTRIBUTEALIGNED" to "1" ================================================================================ TEST configureFunctionName from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:820) TESTING: configureFunctionName from PETSc.Configure(config/PETSc/Configure.py:820) Sees if the compiler supports __func__ or a variant. Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "FUNCTION_NAME_C" to "__func__" Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Executing: g++ -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "FUNCTION_NAME_CXX" to "__func__" ================================================================================ TEST configureIntptrt from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:838) TESTING: configureIntptrt from PETSc.Configure(config/PETSc/Configure.py:838) Determine what to use for uintptr_t Executing: g++ -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/PETSc.options.scalarTypes -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/PETSc.Configure -fopenmp -fPIC -std=c++11 /tmp/petsc-ugU6A3/PETSc.Configure/conftest.cc Successful compile: 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" ================================================================================ TEST configureSolaris from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:865) TESTING: configureSolaris from PETSc.Configure(config/PETSc/Configure.py:865) Solaris specific stuff ================================================================================ TEST configureLinux from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:878) TESTING: configureLinux from PETSc.Configure(config/PETSc/Configure.py:878) Linux specific stuff Defined "HAVE_DOUBLE_ALIGN_MALLOC" to "1" ================================================================================ TEST configureWin32 from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:884) TESTING: configureWin32 from PETSc.Configure(config/PETSc/Configure.py:884) Win32 non-cygwin specific stuff Checking for functions [GetComputerName] in library ['Kernel32.lib'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [GetComputerName] in library ['kernel32'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [GetUserName] in library ['Advapi32.lib'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [GetUserName] in library ['advapi32'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [GetDC] in library ['User32.lib'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [GetDC] in library ['user32'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [CreateCompatibleDC] in library ['Gdi32.lib'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for functions [CreateCompatibleDC] in library ['gdi32'] [] Executing: gcc -c -o /tmp/petsc-ugU6A3/config.libraries/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.types -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -fopenmp -fPIC /tmp/petsc-ugU6A3/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory 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 Checking for type: int32_t Executing: gcc -c -o /tmp/petsc-ugU6A3/config.types/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/config.types/conftest.c Successful compile: 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: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { uid_t u; ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #if defined(PETSC_HAVE_UNISTD_H) #include #endif int main() { int a=R_OK; ; return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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; } Executing: gcc -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c:3:21: fatal error: Windows.h: No such file or directory compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include int main() { LARGE_INTEGER a; DWORD b=a.u.HighPart; ; return 0; } Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c:3:21: fatal error: Windows.h: No such file or directory 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 ""/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi"" Defined make macro "wPETSC_DIR" to "/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi" Defined "ARCH" to ""linux3.11nompi"" ================================================================================ TEST configureCygwinBrokenPipe from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:958) TESTING: configureCygwinBrokenPipe from PETSc.Configure(config/PETSc/Configure.py:958) 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(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:974) TESTING: configureDefaultArch from PETSc.Configure(config/PETSc/Configure.py:974) ================================================================================ TEST configureScript from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:991) TESTING: configureScript from PETSc.Configure(config/PETSc/Configure.py:991) Output a script in the conf directory which will reproduce the configuration ================================================================================ TEST configureInstall from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:1028) TESTING: configureInstall from PETSc.Configure(config/PETSc/Configure.py:1028) 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} check"', '-@echo "========================================="'] ================================================================================ TEST configureGCOV from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:1040) TESTING: configureGCOV from PETSc.Configure(config/PETSc/Configure.py:1040) ================================================================================ TEST configureAtoll from PETSc.Configure(/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/config/PETSc/Configure.py:719) TESTING: configureAtoll from PETSc.Configure(config/PETSc/Configure.py:719) Checks if atoll exists Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { long v = atoll("25"); return 0; } Executing: gcc -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest -fopenmp -fPIC /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "HAVE_ATOLL" to "1" Executing: rm -rf /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include/mpi* /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include/opa* Defined "MPICC_SHOW" to ""Unavailable"" Defined make macro "CC_FLAGS" to "-fopenmp -fPIC " Defined "HAVE_CXX" to "1" Defined make macro "CXX_FLAGS" to "-fopenmp -fPIC -std=c++11 " Defined make macro "CXX_LINKER" to "g++" Defined make macro "CXX_LINKER_FLAGS" to " -fopenmp -fPIC" Defined make macro "CPP_FLAGS" to "" Defined make macro "PCC" to "g++" Defined make macro "PCC_FLAGS" to "-fopenmp -fPIC -std=c++11 " Defined make macro "CC_SUFFIX" to "o" Defined make macro "PCC_LINKER" to "g++" Defined make macro "PCC_LINKER_FLAGS" to " -fopenmp -fPIC" Defined make macro "CC_LINKER_SUFFIX" to "" Defined "HAVE_FORTRAN" to "1" Defined make macro "FPP_FLAGS" to "" Defined make macro "FC_FLAGS" to "-fopenmp -fPIC " Defined make macro "FC_SUFFIX" to "o" Executing: gfortran -V Defined make macro "FC_LINKER" to "gfortran" Defined make macro "FC_LINKER_FLAGS" to " -fopenmp -fPIC " Defined make macro "FC_MODULE_FLAG" to "-I" Defined make macro "FC_MODULE_OUTPUT_FLAG" to "-J" Defined make macro "SL_LINKER" to "g++" Defined make macro "SL_LINKER_FLAGS" to "${PCC_LINKER_FLAGS}" Defined make macro "SL_LINKER_SUFFIX" to "" Defined "SLSUFFIX" to """" Defined make macro "SL_LINKER_LIBS" to "${PETSC_EXTERNAL_LIB_BASIC}" Defined make macro "PETSC_LANGUAGE" to "CXXONLY" Defined make macro "PETSC_SCALAR" to "real" Defined make macro "PETSC_PRECISION" to "double" Executing: CC -VV Defined "USE_SOCKET_VIEWER" to "1" Executing: gcc -c -o /tmp/petsc-ugU6A3/PETSc.Configure/conftest.o -I/tmp/petsc-ugU6A3/config.setCompilers -I/tmp/petsc-ugU6A3/config.compilers -I/tmp/petsc-ugU6A3/config.utilities.closure -I/tmp/petsc-ugU6A3/config.headers -I/tmp/petsc-ugU6A3/config.utilities.cacheDetails -I/tmp/petsc-ugU6A3/config.atomics -I/tmp/petsc-ugU6A3/config.functions -I/tmp/petsc-ugU6A3/config.utilities.featureTestMacros -I/tmp/petsc-ugU6A3/config.packages.valgrind -I/tmp/petsc-ugU6A3/config.utilities.missing -I/tmp/petsc-ugU6A3/config.packages.pthread -I/tmp/petsc-ugU6A3/config.packages.BlasLapack -I/tmp/petsc-ugU6A3/PETSc.Configure -I/tmp/petsc-ugU6A3/config.libraries -I/tmp/petsc-ugU6A3/config.types -fopenmp -fPIC /tmp/petsc-ugU6A3/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_MUMPS" to "1" Defined make macro "MUMPS_LIB" to "-Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq" Defined make macro "MUMPS_INCLUDE" to "-I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include" Defined "HAVE_BLASLAPACK" to "1" Defined make macro "BLASLAPACK_LIB" to "-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core" Defined make macro "BLASLAPACK_INCLUDE" to "" Defined "HAVE_MATHLIB" to "1" Defined make macro "MATHLIB_LIB" to "-lm" Defined make macro "MATHLIB_INCLUDE" to "" Defined "HAVE_PTHREAD" to "1" Defined make macro "PTHREAD_LIB" to "" Defined make macro "PTHREAD_INCLUDE" to "" Defined "HAVE_VALGRIND" to "1" Defined make macro "VALGRIND_LIB" to "" Defined make macro "VALGRIND_INCLUDE" to "-I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include" 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,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl" Defined make macro "PETSC_CC_INCLUDES" to "-I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include" Defined make macro "PETSC_CC_INCLUDES_INSTALL" to "-I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include" Defined make macro "PETSC_FC_INCLUDES" to "-I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include" Defined make macro "PETSC_FC_INCLUDES_INSTALL" to "-I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include" Defined "LIB_DIR" to ""/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/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${PETSC_DIR}/${PETSC_ARCH}/lib -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lpetsc -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl" Defined "USE_SINGLE_LIBRARY" to "1" Defined make macro "PETSC_SYS_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_VEC_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_MAT_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_DM_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_KSP_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_SNES_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_TS_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_TAO_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_CHARACTERISTIC_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_LIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_CONTRIB" to "${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "CONFIGURE_OPTIONS" to "--with-scalar-type=real --with-x=0 --with-hdf5=0 --with-single-library=1 --with-shared-libraries=0 --with-log=0 --with-mpi=0 --with-clanguage=C++ --with-cxx-dialect=C++11 --CXXFLAGS=\"-fopenmp -fPIC\" --CFLAGS=\"-fopenmp -fPIC\" --with-fortran=0 --FFLAGS=\"-fopenmp -fPIC\" --with-64-bit-indices=0 --with-debugging=0 --with-cc=gcc --with-fc=gfortran --with-cxx=g++ COPTFLAGS= CXXOPTFLAGS= FOPTFLAGS= --download-metis=0 --download-superlu_dist=0 --download-parmetis=0 --with-valgrind-dir=/apps/brown/valgrind/3.13.0_gcc-4.8.5 --download-mumps=1 --with-mumps-serial=1 --with-fortran-kernels=0 --with-blaslapack-lib=\"-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core \" --with-blacs-lib=/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64/libmkl_blacs_intelmpi_lp64.so --with-blacs-include=/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/include --with-scalapack=0" Executing: ['/usr/pbs/bin/cmake', '--version'] stdout: cmake version 2.8.12.2 Contents of initial cache file /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/initial_cache_file.cmake : SET (CMAKE_C_COMPILER gcc CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_C_FLAGS "-fopenmp -fPIC " CACHE STRING "Dummy comment" FORCE) SET (CMAKE_Fortran_COMPILER gfortran CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_Fortran_FLAGS "-fopenmp -fPIC " CACHE STRING "Dummy comment" FORCE) SET (CMAKE_CXX_COMPILER g++ CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_CXX_FLAGS "-fopenmp -fPIC -std=c++11 " CACHE STRING "Dummy comment" FORCE) SET (PETSC_CUDA_HOST_FLAGS ,-fopenmp,-fPIC,-std=c++11 CACHE STRING "Dummy comment" FORCE) SET (CMAKE_AR /usr/pbs/bin/ar CACHE FILEPATH "Dummy comment" FORCE) SET (CMAKE_RANLIB /usr/pbs/bin/ranlib CACHE FILEPATH "Dummy comment" FORCE) Removing: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/CMakeCache.txt Removing: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/CMakeFiles/2.8.12.2 Invoking: ['/usr/pbs/bin/cmake', '--trace', '--debug-output', '-C/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/initial_cache_file.cmake', '-DPETSC_CMAKE_ARCH:STRING=linux3.11nompi', '/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi'] Executing: ['/usr/pbs/bin/cmake', '--trace', '--debug-output', '-C/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/initial_cache_file.cmake', '-DPETSC_CMAKE_ARCH:STRING=linux3.11nompi', '/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi'] stdout: Running with trace output on. Running with debug output on. -- The C compiler identification is GNU 5.2.0 Called from: [2] /usr/share/cmake/Modules/CMakeDetermineCCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Check for working C compiler: /apps/cent7/gcc/5.2.0/bin/gcc Called from: [2] /usr/share/cmake/Modules/CMakeTestCCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Check for working C compiler: /apps/cent7/gcc/5.2.0/bin/gcc -- works Called from: [2] /usr/share/cmake/Modules/CMakeTestCCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Detecting C compiler ABI info Called from: [2] /usr/share/cmake/Modules/CMakeTestCCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Detecting C compiler ABI info - done Called from: [2] /usr/share/cmake/Modules/CMakeTestCCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- The Fortran compiler identification is GNU Called from: [2] /usr/share/cmake/Modules/CMakeDetermineFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Check for working Fortran compiler: /apps/cent7/gcc/5.2.0/bin/gfortran Called from: [2] /usr/share/cmake/Modules/CMakeTestFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Check for working Fortran compiler: /apps/cent7/gcc/5.2.0/bin/gfortran -- works Called from: [2] /usr/share/cmake/Modules/CMakeTestFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Detecting Fortran compiler ABI info Called from: [2] /usr/share/cmake/Modules/CMakeTestFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Detecting Fortran compiler ABI info - done Called from: [2] /usr/share/cmake/Modules/CMakeTestFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Checking whether /apps/cent7/gcc/5.2.0/bin/gfortran supports Fortran 90 Called from: [2] /usr/share/cmake/Modules/CMakeTestFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Checking whether /apps/cent7/gcc/5.2.0/bin/gfortran supports Fortran 90 -- yes Called from: [2] /usr/share/cmake/Modules/CMakeTestFortranCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- The CXX compiler identification is GNU 5.2.0 Called from: [2] /usr/share/cmake/Modules/CMakeDetermineCXXCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Check for working CXX compiler: /apps/cent7/gcc/5.2.0/bin/g++ Called from: [2] /usr/share/cmake/Modules/CMakeTestCXXCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Check for working CXX compiler: /apps/cent7/gcc/5.2.0/bin/g++ -- works Called from: [2] /usr/share/cmake/Modules/CMakeTestCXXCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Detecting CXX compiler ABI info Called from: [2] /usr/share/cmake/Modules/CMakeTestCXXCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Detecting CXX compiler ABI info - done Called from: [2] /usr/share/cmake/Modules/CMakeTestCXXCompiler.cmake [1] /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/CMakeLists.txt -- Configuring done -- Generating /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi -- Generating done -- Build files have been written to: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi CMake configured successfully, using as default build Defined make macro "PETSC_BUILD_USING_CMAKE" to "1" ================================================================================ **** linux3.11nompi/lib/petsc/conf/petscvariables **** C_DEPFLAGS = -MMD -MP FC_DEFINE_FLAG = -D AR_FLAGS = cr CXX_DEPFLAGS = -MMD -MP FC_DEPFLAGS = -MMD -MP FAST_AR_FLAGS = Scq FC_MODULE_OUTPUT_FLAG = -J PETSC_LANGUAGE = CXXONLY FC_LINKER_FLAGS = -fopenmp -fPIC LIBNAME = ${INSTALL_LIB_DIR}/libpetsc.${AR_LIB_SUFFIX} SL_LINKER = g++ PETSC_BUILD_USING_CMAKE = 1 CC_FLAGS = -fopenmp -fPIC PETSC_PRECISION = double PETSC_LIB_BASIC = -lpetsc FC_FLAGS = -fopenmp -fPIC BLASLAPACK_LIB = -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core PETSC_MAT_LIB = ${PETSC_WITH_EXTERNAL_LIB} PCC = g++ SL_LINKER_LIBS = ${PETSC_EXTERNAL_LIB_BASIC} SHLIBS = libpetsc VALGRIND_INCLUDE = -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include MATHLIB_INCLUDE = MPI_LIB = PETSC_SNES_LIB = ${PETSC_WITH_EXTERNAL_LIB} PETSC_EXTERNAL_LIB_BASIC = -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl PETSC_TS_LIB = ${PETSC_WITH_EXTERNAL_LIB} SL_LINKER_FLAGS = ${PCC_LINKER_FLAGS} CC_SUFFIX = o PETSC_LIB = ${PETSC_WITH_EXTERNAL_LIB} PETSC_FC_INCLUDES_INSTALL = -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include CONFIGURE_OPTIONS = --with-scalar-type=real --with-x=0 --with-hdf5=0 --with-single-library=1 --with-shared-libraries=0 --with-log=0 --with-mpi=0 --with-clanguage=C++ --with-cxx-dialect=C++11 --CXXFLAGS=\"-fopenmp -fPIC\" --CFLAGS=\"-fopenmp -fPIC\" --with-fortran=0 --FFLAGS=\"-fopenmp -fPIC\" --with-64-bit-indices=0 --with-debugging=0 --with-cc=gcc --with-fc=gfortran --with-cxx=g++ COPTFLAGS= CXXOPTFLAGS= FOPTFLAGS= --download-metis=0 --download-superlu_dist=0 --download-parmetis=0 --with-valgrind-dir=/apps/brown/valgrind/3.13.0_gcc-4.8.5 --download-mumps=1 --with-mumps-serial=1 --with-fortran-kernels=0 --with-blaslapack-lib=\"-Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core \" --with-blacs-lib=/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64/libmkl_blacs_intelmpi_lp64.so --with-blacs-include=/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/include --with-scalapack=0 PETSC_CHARACTERISTIC_LIB = ${PETSC_WITH_EXTERNAL_LIB} PTHREAD_LIB = PETSC_SCALAR = real PETSC_FC_INCLUDES = -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include CPP_FLAGS = PETSC_KSP_LIB_BASIC = -lpetsc FPP_FLAGS = PETSC_CC_INCLUDES_INSTALL = -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include FC_LINKER = gfortran PETSC_KSP_LIB = ${PETSC_WITH_EXTERNAL_LIB} CXX_FLAGS = -fopenmp -fPIC -std=c++11 PCC_LINKER_FLAGS = -fopenmp -fPIC PETSC_CONTRIB = ${PETSC_WITH_EXTERNAL_LIB} CXX_LINKER_FLAGS = -fopenmp -fPIC PCC_LINKER = g++ PETSC_SYS_LIB = ${PETSC_WITH_EXTERNAL_LIB} PCC_FLAGS = -fopenmp -fPIC -std=c++11 VALGRIND_LIB = PTHREAD_INCLUDE = PETSC_CC_INCLUDES = -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/include -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include MATHLIB_LIB = -lm CXX_LINKER = g++ PETSC_TAO_LIB_BASIC = -lpetsc BLASLAPACK_INCLUDE = PETSC_TS_LIB_BASIC = -lpetsc PETSC_VEC_LIB = ${PETSC_WITH_EXTERNAL_LIB} CC_LINKER_SUFFIX = SL_LINKER_SUFFIX = PETSC_DM_LIB = ${PETSC_WITH_EXTERNAL_LIB} FC_MODULE_FLAG = -I wPETSC_DIR = /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi PETSC_WITH_EXTERNAL_LIB = -L${PETSC_DIR}/${PETSC_ARCH}/lib -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/gcc/5.2.0/lib/gcc/x86_64-unknown-linux-gnu/5.2.0 -L/apps/cent7/gcc/5.2.0/lib64 -L/apps/cent7/gcc/5.2.0/lib -lpetsc -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core -lm -lstdc++ -ldl -lgfortran -lm -lgfortran -lm -lgomp -lgcc_s -lquadmath -lpthread -lstdc++ -ldl MUMPS_INCLUDE = -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include PETSC_TAO_LIB = ${PETSC_WITH_EXTERNAL_LIB} MPI_INCLUDE = FC_SUFFIX = o MUMPS_LIB = -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq SHELL = /usr/pbs/bin/sh GREP = /usr/pbs/bin/grep MV = /usr/pbs/bin/mv PYTHON = /usr/pbs/bin/python MKDIR = /usr/pbs/bin/mkdir -p SEDINPLACE = /usr/pbs/bin/sed -i M4 = /usr/pbs/bin/m4 SED = /usr/pbs/bin/sed DIFF = /usr/pbs/bin/diff -w GZIP = /usr/pbs/bin/gzip RM = /usr/pbs/bin/rm -f CP = /usr/pbs/bin/cp CC_LINKER_SLFLAG = -Wl,-rpath, CC = gcc RANLIB = /usr/pbs/bin/ranlib DYNAMICLINKER = /usr/pbs/bin/ar CXX = g++ FC = gfortran CXXCPP = g++ -E FC_LINKER_SLFLAG = -Wl,-rpath, CPP = gcc -E AR_LIB_SUFFIX = a LD_SHARED = /usr/pbs/bin/ar AR = /usr/pbs/bin/ar PREFIXDIR = /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi PETSC_SCALAR_SIZE = 64 PETSC_INDEX_SIZE = 32 MAKE_IS_GNUMAKE = 1 MAKE_NP = 18 NPMAX = 24 OMAKE_PRINTDIR = /usr/pbs/bin/gmake --print-directory MAKE = /usr/pbs/bin/gmake MAKE_PAR_OUT_FLG = OMAKE = /usr/pbs/bin/gmake --no-print-directory MAKE_LOAD = 36.0 MAKE_TEST_NP = 18 GIT = git HG = hg BUILDSHAREDLIB = no GDB = /usr/pbs/bin/gdb DSYMUTIL = true MPIEXEC = ${PETSC_DIR}/lib/petsc/bin/petsc-mpiexec.uni MPI_IS_MPIUNI = 1 CMAKE = /usr/pbs/bin/cmake CTEST = /usr/pbs/bin/ctest **** linux3.11nompi/lib/petsc/conf/petscrules **** shared_install: -@echo "Now to check if the libraries are working do:" -@echo "make PETSC_DIR=${PETSC_DIR} PETSC_ARCH=${PETSC_ARCH} check" -@echo "=========================================" libc: ${LIBNAME}(${OBJSC}) libcxx: ${LIBNAME}(${OBJSCXX}) libcu: ${LIBNAME}(${OBJSCU}) libf: ${OBJSF} -${AR} ${AR_FLAGS} ${LIBNAME} ${OBJSF} shared_arch: .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 $@ $< mfem-build: mfem-install: libmesh-build: libmesh-install: mpi4py-build: mpi4py-install: petsc4py-build: petsc4py-install: slepc-build: slepc-install: **** linux3.11nompi/include/petscconf.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #ifndef HAVE_MATH_INFINITY #define HAVE_MATH_INFINITY 1 #endif #ifndef IS_COLORING_MAX #define IS_COLORING_MAX 65535 #endif #ifndef MPI_Type_create_struct #define MPI_Type_create_struct(count,lens,displs,types,newtype) MPI_Type_struct((count),(lens),(displs),(types),(newtype)) #endif #ifndef MPI_Comm_set_errhandler #define MPI_Comm_set_errhandler(comm,p_errhandler) MPI_Errhandler_set((comm),(p_errhandler)) #endif #ifndef MPI_Comm_create_errhandler #define MPI_Comm_create_errhandler(p_err_fun,p_errhandler) MPI_Errhandler_create((p_err_fun),(p_errhandler)) #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_HAVE_MATHLIB #define PETSC_HAVE_MATHLIB 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_DEPRECATED #define PETSC_DEPRECATED(why) __attribute((deprecated)) #endif #ifndef PETSC_REPLACE_DIR_SEPARATOR #define PETSC_REPLACE_DIR_SEPARATOR '\\' #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_ARCH #define PETSC_ARCH "linux3.11nompi" #endif #ifndef PETSC_HAVE_FORTRAN #define PETSC_HAVE_FORTRAN 1 #endif #ifndef PETSC_DIR #define PETSC_DIR "/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi" #endif #ifndef PETSC_DEPRECATED_ENUM #define PETSC_DEPRECATED_ENUM(why) #endif #ifndef PETSC_LIB_DIR #define PETSC_LIB_DIR "/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib" #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_SLSUFFIX #define PETSC_SLSUFFIX "" #endif #ifndef PETSC_FUNCTION_NAME_CXX #define PETSC_FUNCTION_NAME_CXX __func__ #endif #ifndef PETSC_HAVE_MUMPS #define PETSC_HAVE_MUMPS 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_MPICC_SHOW #define PETSC_MPICC_SHOW "Unavailable" #endif #ifndef PETSC_FUNCTION_NAME_C #define PETSC_FUNCTION_NAME_C __func__ #endif #ifndef PETSC_HAVE_VALGRIND #define PETSC_HAVE_VALGRIND 1 #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_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_SYS_SOCKET_H #define PETSC_HAVE_SYS_SOCKET_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_PTHREAD_H #define PETSC_HAVE_PTHREAD_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_IMMINTRIN_H #define PETSC_HAVE_IMMINTRIN_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_HAVE_C99 #define PETSC_HAVE_C99 1 #endif #ifndef PETSC_USING_F90 #define PETSC_USING_F90 1 #endif #ifndef PETSC_USING_F2003 #define PETSC_USING_F2003 1 #endif #ifndef PETSC_FORTRAN_CHARLEN_T #define PETSC_FORTRAN_CHARLEN_T int #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_FORTRAN_TYPE_INITIALIZE #define PETSC_HAVE_FORTRAN_TYPE_INITIALIZE -2 #endif #ifndef PETSC_HAVE_RTLD_LAZY #define PETSC_HAVE_RTLD_LAZY 1 #endif #ifndef PETSC_CXX_INLINE #define PETSC_CXX_INLINE inline #endif #ifndef PETSC_HAVE_FORTRAN_FLUSH #define PETSC_HAVE_FORTRAN_FLUSH 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_FORTRAN_TYPE_INITIALIZE #define PETSC_FORTRAN_TYPE_INITIALIZE = -2 #endif #ifndef PETSC_HAVE_FORTRAN_TYPE_STAR #define PETSC_HAVE_FORTRAN_TYPE_STAR 1 #endif #ifndef PETSC_CXX_RESTRICT #define PETSC_CXX_RESTRICT __restrict #endif #ifndef PETSC_C_INLINE #define PETSC_C_INLINE inline #endif #ifndef PETSC_HAVE_LIBDL #define PETSC_HAVE_LIBDL 1 #endif #ifndef PETSC_HAVE_LIBGFORTRAN #define PETSC_HAVE_LIBGFORTRAN 1 #endif #ifndef PETSC_HAVE_LIBMUMPS_COMMON #define PETSC_HAVE_LIBMUMPS_COMMON 1 #endif #ifndef PETSC_HAVE_LIBMKL_GNU_THREAD #define PETSC_HAVE_LIBMKL_GNU_THREAD 1 #endif #ifndef PETSC_HAVE_LIBGOMP #define PETSC_HAVE_LIBGOMP 1 #endif #ifndef PETSC_HAVE_LIBM #define PETSC_HAVE_LIBM 1 #endif #ifndef PETSC_HAVE_LIBMKL_INTEL_LP64 #define PETSC_HAVE_LIBMKL_INTEL_LP64 1 #endif #ifndef PETSC_HAVE_LIBDMUMPS #define PETSC_HAVE_LIBDMUMPS 1 #endif #ifndef PETSC_HAVE_LIBPTHREAD #define PETSC_HAVE_LIBPTHREAD 1 #endif #ifndef PETSC_HAVE_LIBGCC_S #define PETSC_HAVE_LIBGCC_S 1 #endif #ifndef PETSC_HAVE_LIBMPISEQ #define PETSC_HAVE_LIBMPISEQ 1 #endif #ifndef PETSC_HAVE_LIBZMUMPS #define PETSC_HAVE_LIBZMUMPS 1 #endif #ifndef PETSC_HAVE_FENV_H #define PETSC_HAVE_FENV_H 1 #endif #ifndef PETSC_HAVE_LIBSTDC__ #define PETSC_HAVE_LIBSTDC__ 1 #endif #ifndef PETSC_HAVE_LOG2 #define PETSC_HAVE_LOG2 1 #endif #ifndef PETSC_HAVE_LIBPORD #define PETSC_HAVE_LIBPORD 1 #endif #ifndef PETSC_HAVE_LIBMKL_CORE #define PETSC_HAVE_LIBMKL_CORE 1 #endif #ifndef PETSC_HAVE_LIBSMUMPS #define PETSC_HAVE_LIBSMUMPS 1 #endif #ifndef PETSC_HAVE_LIBCMUMPS #define PETSC_HAVE_LIBCMUMPS 1 #endif #ifndef PETSC_HAVE_ERF #define PETSC_HAVE_ERF 1 #endif #ifndef PETSC_HAVE_LIBQUADMATH #define PETSC_HAVE_LIBQUADMATH 1 #endif #ifndef PETSC_HAVE_TGAMMA #define PETSC_HAVE_TGAMMA 1 #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_BITS_PER_BYTE #define PETSC_BITS_PER_BYTE 8 #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_HAVE_STRUCT_SIGACTION #define PETSC_HAVE_STRUCT_SIGACTION 1 #endif #ifndef PETSC_SIZEOF_SIZE_T #define PETSC_SIZEOF_SIZE_T 8 #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_CXX #define PETSC_CLANGUAGE_CXX 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_HAVE_MMAP #define PETSC_HAVE_MMAP 1 #endif #ifndef PETSC_HAVE_GETPAGESIZE #define PETSC_HAVE_GETPAGESIZE 1 #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_SIGNAL_CAST #define PETSC_SIGNAL_CAST #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_GDB_DEBUGGER #define PETSC_USE_GDB_DEBUGGER 1 #endif #ifndef PETSC_BLASLAPACK_UNDERSCORE #define PETSC_BLASLAPACK_UNDERSCORE 1 #endif #ifndef PETSC_HAVE_MKL #define PETSC_HAVE_MKL 1 #endif #ifndef PETSC_HAVE_MPIUNI #define PETSC_HAVE_MPIUNI 1 #endif #ifndef PETSC_HAVE_MPI_COMM_C2F #define PETSC_HAVE_MPI_COMM_C2F 1 #endif #ifndef PETSC_HAVE_MPI_COMM_F2C #define PETSC_HAVE_MPI_COMM_F2C 1 #endif #ifndef PETSC_HAVE_MPI_FINT #define PETSC_HAVE_MPI_FINT 1 #endif #ifndef PETSC_HAVE_MPI_TYPE_GET_ENVELOPE #define PETSC_HAVE_MPI_TYPE_GET_ENVELOPE 1 #endif #ifndef PETSC_HAVE_MPI_TYPE_DUP #define PETSC_HAVE_MPI_TYPE_DUP 1 #endif #ifndef PETSC_HAVE_MPI_IN_PLACE #define PETSC_HAVE_MPI_IN_PLACE 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_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 #ifndef PETSC_PYTHON_EXE #define PETSC_PYTHON_EXE "/usr/pbs/bin/python" #endif #endif **** linux3.11nompi/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 ----------------------------------------------------------------- MUMPS: Install : Installed MUMPS into /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi PETSc: Build : Set default architecture to linux3.11nompi in lib/petsc/conf/petscvariables File creation : Created linux3.11nompi/lib/petsc/conf/reconfigure-linux3.11nompi.py for automatic reconfiguration Framework: RDict update : Substitutions were stored in RDict with parent None File creation : Created makefile configure header linux3.11nompi/lib/petsc/conf/petscvariables File creation : Created makefile configure header linux3.11nompi/lib/petsc/conf/petscrules File creation : Created configure header linux3.11nompi/include/petscconf.h File creation : Created C specific configure header linux3.11nompi/include/petscfix.h Compilers: C Compiler: gcc -fopenmp -fPIC C++ Compiler: g++ -fopenmp -fPIC -std=c++11 Fortran Compiler: gfortran -fopenmp -fPIC Linkers: Static linker: /usr/pbs/bin/ar cr Dynamic linker: /usr/pbs/bin/ar make: BLAS/LAPACK: -Wl,-rpath,/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -L/apps/cent7/intel/compilers_and_libraries_2017.1.132/linux/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_gnu_thread -lmkl_core cmake: pthread: MUMPS: Includes: -I/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/include Library: -Wl,-rpath,/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -L/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi/linux3.11nompi/lib -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lmpiseq Arch: valgrind: Includes: -I/apps/brown/valgrind/3.13.0_gcc-4.8.5/include PETSc: PETSC_ARCH: linux3.11nompi PETSC_DIR: /depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi Scalar type: real Precision: double Clanguage: Cxx Integer size: 32 shared libraries: disabled Memory alignment: 16 xxx=========================================================================xxx Configure stage complete. Now build PETSc libraries with (gnumake build): make PETSC_DIR=/depot/kildisha/apps/brown/nemo5/libs/petsc/build-real3.11nompi PETSC_ARCH=linux3.11nompi all xxx=========================================================================xxx ================================================================================ Finishing configure run at Tue, 19 Nov 2019 14:31:38 -0500 ================================================================================