================================================================================ ================================================================================ Starting configure run at Sun, 19 Apr 2020 17:58:27 -0400 Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --with-fc=0 --COPTFLAGS="-g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2" --CXXOPTFLAGS="-g -O2 -fPIC -fopenmp" --FOPTFLAGS="-g -O2 -fPIC -fopenmp" --CUDAOPTFLAGS="-O2 -g" --with-ssl=0 --with-batch=0 --with-cxx=mpicxx --with-mpiexec="jsrun -g1" --with-cuda=1 --with-cudac=nvcc --download-p4est=1 --download-zlib --download-hdf5=1 --download-metis --download-superlu_dist-commit=HEAD --with-make-np=16 --download-parmetis --download-triangle --with-blaslapack-lib="-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack" --with-cc=mpicc --with-shared-libraries=1 --with-x=0 --with-64-bit-indices=0 --with-debugging=1 PETSC_ARCH=arch-summit-opt-gnu-cuda-omp-2d --with-openmp=1 --with-threadsaftey=1 --with-log=1 PETSC_DIR=/gpfs/alpine/scratch/adams/csc314/petsc Working directory: /gpfs/alpine/csc314/scratch/adams/petsc Machine platform: ('Linux', 'login4', '4.14.0-115.14.1.el7a.ppc64le', '#1 SMP Thu Oct 3 05:32:24 EDT 2019', 'ppc64le', 'ppc64le') Python version: 2.7.5 (default, Jun 11 2019, 16:23:49) [GCC 4.8.5 20150623 (Red Hat 4.8.5-36)] ================================================================================ ================================================================================ TEST configureExternalPackagesDir from config.framework(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/framework.py:911) TESTING: configureExternalPackagesDir from config.framework(config/BuildSystem/config/framework.py:911) ================================================================================ TEST configureDebuggers from config.utilities.debuggers(/gpfs/alpine/csc314/scratch/adams/petsc/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 Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Checking for program /sw/sources/lsf-tools/2.0/summit/bin/gdb...not found Checking for program /sw/summit/xalt/1.2.0/bin/gdb...not found Checking for program /sw/summit/forge/20.0.1/bin/gdb...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/gdb...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/gdb...not found Checking for program /sw/summit/gcc/6.4.0/bin/gdb...not found Checking for program /sw/summit/cuda/10.1.243/bin/gdb...not found Checking for program /usr/bin/gdb...found Defined make macro "GDB" to "/usr/bin/gdb" Defined "USE_DEBUGGER" to ""gdb"" Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Defined make macro "DSYMUTIL" to "true" child config.utilities.debuggers 0.011438 ================================================================================ TEST configureDirectories from PETSc.options.petscdir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/petscdir.py:23) TESTING: configureDirectories from PETSc.options.petscdir(config/PETSc/options/petscdir.py:23) Checks PETSC_DIR and sets if not set Version Information: #define PETSC_VERSION_RELEASE 0 #define PETSC_VERSION_MAJOR 3 #define PETSC_VERSION_MINOR 13 #define PETSC_VERSION_SUBMINOR 0 #define PETSC_VERSION_PATCH 0 #define PETSC_VERSION_DATE "unknown" #define PETSC_VERSION_GIT "unknown" #define PETSC_VERSION_DATE_GIT "unknown" #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) \ child PETSc.options.petscdir 0.004511 ================================================================================ TEST getDatafilespath from PETSc.options.dataFilesPath(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/dataFilesPath.py:29) TESTING: getDatafilespath from PETSc.options.dataFilesPath(config/PETSc/options/dataFilesPath.py:29) Checks what DATAFILESPATH should be child PETSc.options.dataFilesPath 0.000593 ================================================================================ TEST configureGit from config.sourceControl(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/sourceControl.py:24) TESTING: configureGit from config.sourceControl(config/BuildSystem/config/sourceControl.py:24) Find the Git executable Checking for program /sw/sources/lsf-tools/2.0/summit/bin/git...not found Checking for program /sw/summit/xalt/1.2.0/bin/git...not found Checking for program /sw/summit/forge/20.0.1/bin/git...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/git...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/git...not found Checking for program /sw/summit/gcc/6.4.0/bin/git...not found Checking for program /sw/summit/cuda/10.1.243/bin/git...not found Checking for program /usr/bin/git...found Defined make macro "GIT" to "git" Running Executable WITHOUT threads to time it out Executing: git --version stdout: git version 1.8.3.1 child config.sourceControl 0.005914 ================================================================================ TEST configureInstallationMethod from PETSc.options.petscclone(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/petscclone.py:20) TESTING: configureInstallationMethod from PETSc.options.petscclone(config/PETSc/options/petscclone.py:20) lib/petsc/bin/maint exists. This appears to be a repository clone .git directory exists Running Executable WITHOUT threads to time it out Executing: ['git', 'describe', '--match=v*'] stdout: v3.13-164-ge4ca43a Running Executable WITHOUT threads to time it out Executing: ['git', 'log', '-1', '--pretty=format:%H'] stdout: e4ca43a8addab36a6a212ad01ad11c44032dff37 Running Executable WITHOUT threads to time it out Executing: ['git', 'log', '-1', '--pretty=format:%ci'] stdout: 2020-04-19 12:55:19 -0400 Running Executable WITHOUT threads to time it out Executing: ['git', 'branch'] stdout: * mark/feature-xgc-interface-rebase-v2 master Defined "VERSION_GIT" to ""v3.13-164-ge4ca43a"" Defined "VERSION_DATE_GIT" to ""2020-04-19 12:55:19 -0400"" Defined "VERSION_BRANCH_GIT" to ""mark/feature-xgc-interface-rebase-v2"" child PETSc.options.petscclone 0.040431 ================================================================================ TEST setNativeArchitecture from PETSc.options.arch(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/arch.py:31) TESTING: setNativeArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:31) ================================================================================ TEST configureArchitecture from PETSc.options.arch(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/arch.py:43) TESTING: configureArchitecture from PETSc.options.arch(config/PETSc/options/arch.py:43) Checks PETSC_ARCH and sets if not set =============================================================================== Warning: PETSC_ARCH from environment does not match command-line or name of script. Warning: Using from command-line or name of script: arch-summit-opt-gnu-cuda-omp-2d, ignoring environment: arch-summit-opt-gnu-cuda-omp =============================================================================== configure hash file: arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/configure-hash does not match Uname: Linux ppc64le PATH=/sw/sources/lsf-tools/2.0/summit/bin:/sw/summit/xalt/1.2.0/bin:/sw/summit/forge/20.0.1/bin:/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin:/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin:/sw/summit/gcc/6.4.0/bin:/sw/summit/cuda/10.1.243/bin:/usr/bin:/usr/sbin:/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43/bin:/sw/sources/hpss/bin:/opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/etc:/opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/bin:/opt/ibm/csm/bin:/usr/local/bin:/usr/local/sbin:/opt/ibm/flightlog/bin:/opt/ibutils/bin:/opt/ibm/spectrum_mpi/jsm_pmix/bin:/opt/puppetlabs/bin:/usr/lpp/mmfs/bin args: --COPTFLAGS=-g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 --CUDAOPTFLAGS=-O2 -g --CXXOPTFLAGS=-g -O2 -fPIC -fopenmp --FOPTFLAGS=-g -O2 -fPIC -fopenmp --download-hdf5=1 --download-metis --download-p4est=1 --download-parmetis --download-superlu_dist --download-triangle --download-zlib --with-64-bit-indices=0 --with-batch=0 --with-blaslapack-lib=-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack --with-cc=mpicc --with-cuda=1 --with-cudac=nvcc --with-cxx=mpicxx --with-debugging=1 --with-fc=0 --with-log=1 --with-make-np=16 --with-mpiexec=jsrun -g1 --with-openmp=1 --with-shared-libraries=1 --with-ssl=0 --with-threadsaftey=1 --with-x=0 PETSC_DIR=/gpfs/alpine/scratch/adams/csc314/petsc 01ba4719c80b6fe911b091a7c05124b64eeece964e09c058ef8f9805daca546b config/PETSc/__init__.py 03e18e8f84466f17a7160c047d4af3182cfdffeb840c953ab549a5aeb1dfce03 config/BuildSystem/config/packages/petsc4py.py 049be0d9ca7d151e8caff1340662d97ee25bde73abb05986289188bc2f36241f config/BuildSystem/config/packages/openmp.py 08158d4057517b8f5b50f2e3990c87094d4a8f6897b9ac705e80a29c3d0cb612 config/BuildSystem/config/packages/unittestcpp.py 0838d54010d5fac407d1197406a9006a4dc02f1629dbc760bf0d542aac3085de config/PETSc/options/petscdir.py 090d6277b4fd5ea2c6123de468187ff1ec48bfc62da99c50dfecc9321828afc7 config/BuildSystem/config/packages/muparser.py 09534970e3682520db87ec096b48923cc3b7bb9e76038e1e4316fbe5e12f3dec config/PETSc/options/languages.py 09b5cc2d13339445c0d258e007958188d6bf5ad14d666260fc922f0e95f477c0 config/BuildSystem/config/packages/pflotran.py 0a5a27892fb291846c8979fd2326f7429c810168e3668a6518844b3607ef1dff config/BuildSystem/config/utilities/debuggers.py 0c9df71e72e0821568e80f9b7d1c0b58d0fcb399247a1664fd6ee06a259c6281 config/BuildSystem/args.py 0ce801f3122653125f86e10b4c0e9fc68a432f05af36056593ef428ccd250a5d config/BuildSystem/config/packages/szlib.py 0ea717a30a02e07fa6a354d97daf69c7e1b1890737641707436c1ba670505095 config/BuildSystem/regression/__init__.py 10d7476a52ad4402ba995680456047c4b3196872f857430c5ad72748cff848f8 config/BuildSystem/config/packages/libceed.py 12c414d48c1073abc92d3333a4dcd62432636468e931e1f4e92d6677c67cb6b3 config/BuildSystem/config/regression/shellTest.py 14852caa4294c80831b87bfbc3d76a78ad062b6cca06258b39dc672fa568f8c0 config/BuildSystem/config/packages/lgrind.py 1689d67b923a645ac03c076310b184e5ca43695fee07905e165a2135fb88ccb5 config/BuildSystem/config/packages/Matlab.py 191e69153c5a12dbb9a7de7604a4b366ecd4eb4b1b351f7217148bd33ba1463c config/BuildSystem/config/compilerFlags.py 1a7faedffe6711341c83c371a69e9f3e553f092f3a12787239ad74de12313960 config/BuildSystem/config/packages/regex.py 1b6ccfef6fd2ba823b09967dd9a4ccb3929901aecd394f2ea03fdcdd59176b46 config/BuildSystem/config/packages/zlib.py 1d3d281c6e478c878eb843d1b34ebdecd34564b08bf4479c4caabd24705accdd config/BuildSystem/config/packages/MFEM.py 1da11c8bf6cf0362854230ac155552e0da9bd41d6e88fe2727aa7271fefe7c72 config/BuildSystem/config/packages/cxxlibs.py 2028d35e34d5959bc768831082055cc0cda54e594d773f10704e6a18716ed1ec config/configure.py 25a3f95ce5a3ae04747d1130a92e97a6cf3024fa39613b6ead5debe94027ce87 config/PETSc/Configure.py 28398f21bb2f2b812df55d9f736d021aa7c2f6a4c291d56e2bc362226d57a9b9 config/BuildSystem/config/compile/__init__.py 29b515b1b6a6cae851992ef792518ef68396a3ed4e105323aa0fa2668354af23 config/BuildSystem/config/packages/Trilinos.py 2da837ebb432a40d16765e08cebe31a89707609cf411ea9509b8987ba6580df3 config/BuildSystem/config/packages/Chombo.py 2de15f5910e9449de3f76c2d75f1319012fe24d81c6a5348eebe679fd9fe99d1 config/BuildSystem/help.py 2e07d08450dcdfe2c8fb7e4553bfad64748dda21d2a59f0e8d4e4f08e84d3be2 config/BuildSystem/config/compile/CUDA.py 2fe1db993d83288acfe4a13d8ebb1c0152a9b4ee5e20d35026bf00092de4a862 config/BuildSystem/config/packages/hdf5.py 303d659f8f5c1f89f42f129311baa0b4ee0217bb27114150e8faa2196a8c7099 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hash file: arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/configure-hash Deleted configure hash file: arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/configure-hash child PETSc.options.arch 0.025429 ================================================================================ TEST setInstallDir from PETSc.options.installDir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/installDir.py:35) TESTING: setInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:35) setup installDir to either prefix or if that is not set to PETSC_DIR/PETSC_ARCH Defined make macro "PREFIXDIR" to "/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d" ================================================================================ TEST saveReconfigure from PETSc.options.installDir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/installDir.py:80) TESTING: saveReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:80) ================================================================================ TEST cleanConfDir from PETSc.options.installDir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/installDir.py:73) TESTING: cleanConfDir from PETSc.options.installDir(config/PETSc/options/installDir.py:73) ================================================================================ TEST configureInstallDir from PETSc.options.installDir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/installDir.py:57) TESTING: configureInstallDir from PETSc.options.installDir(config/PETSc/options/installDir.py:57) Makes installDir subdirectories if it does not exist for both prefix install location and PETSc work install location Changed persistence directory to /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf ================================================================================ TEST restoreReconfigure from PETSc.options.installDir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/installDir.py:93) TESTING: restoreReconfigure from PETSc.options.installDir(config/PETSc/options/installDir.py:93) child PETSc.options.installDir 0.001494 ================================================================================ TEST setExternalPackagesDir from PETSc.options.externalpackagesdir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/externalpackagesdir.py:15) TESTING: setExternalPackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:15) ================================================================================ TEST cleanExternalpackagesDir from PETSc.options.externalpackagesdir(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/externalpackagesdir.py:22) TESTING: cleanExternalpackagesDir from PETSc.options.externalpackagesdir(config/PETSc/options/externalpackagesdir.py:22) child PETSc.options.externalpackagesdir 0.000362 ================================================================================ TEST configureCLanguage from PETSc.options.languages(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/languages.py:27) TESTING: configureCLanguage from PETSc.options.languages(config/PETSc/options/languages.py:27) Choose whether to compile the PETSc library using a C or C++ compiler C language is C Defined "CLANGUAGE_C" to "1" Defined make macro "CLANGUAGE" to "C" child PETSc.options.languages 0.000791 ================================================================================ TEST printEnvVariables from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1694) TESTING: printEnvVariables from config.setCompilers(config/BuildSystem/config/setCompilers.py:1694) **** printenv **** LMOD_FAMILY_MPI=spectrum-mpi XL_LINKER=/sw/summit/xalt/1.2.0/bin/ld 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__LMOD_REF_COUNT_LIBRARY_PATH=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64:1;/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib:1;/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43/lib:1 LMOD_FAMILY_COMPILER_VERSION=6.4.0 __LMOD_REF_COUNT_CMAKE_PREFIX_PATH=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm:1;/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb:1;/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t:1;/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43:1 __Init_Default_Modules=1 XDG_SESSION_ID=11306 LMOD_FAMILY_COMPILER=gcc OLCF_LMOD_ROOT=/sw/summit OMPI_FC=gfortran HOSTNAME=login4 JSM_JSRUN_NO_WARN_TOPOLOGY=1 DDT_HOME=/sw/summit/forge/20.0.1 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__LMOD_REF_COUNT__LMFILES_=/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/hsi/5.0.2.p5.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/xalt/1.2.0.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/lsf-tools/2.0.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/darshan-runtime/3.1.7.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/DefApps.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/cuda/10.1.243:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/Core/gcc/6.4.0.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/gcc/6.4.0/cmake/3.15.2.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/gcc/6.4.0/spectrum-mpi/10.3.1.2-20200121.lua:1;/sw/summit/modulefiles/site/linux-rhel7-ppc64le/gcc/6.4.0/netlib-lapack/3.8.0.lua:1;/sw/summit/modulefiles/core/forge/20.0.1:1 GIT_PS1_SHOWUPSTREAM=auto CUDA_TOOLKIT_ROOT_DIR=/sw/summit/cuda/10.1.243 _ModuleTable_Sz_=8 OLCF_MODULEPATH_ROOT=/sw/summit/modulefiles OMPI_CC=gcc __LMOD_REF_COUNT_CPATH=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/include:1;/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include:1;/sw/summit/cuda/10.1.243/include:1 LMOD_CMD=/sw/summit/lmod/8.2.10/libexec/lmod PROJWORK=/gpfs/alpine/proj-shared _ModuleTable005_=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 BASH_FUNC_module()=() { eval $($LMOD_CMD bash "$@") && eval $(${LMOD_SETTARG_CMD:-:} -s sh) } XLSF_UIDDIR=/opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/lib/uid OLCF_DARSHAN_RUNTIME_ROOT=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43 OLCF_GCC_ROOT=/sw/summit/gcc/6.4.0 SSH_TTY=/dev/pts/13 CVS_RSH=ssh _ModuleTable006_=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 OLDPWD=/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d PAMI_IBV_ENABLE_OOO_AR=1 OMPI_LD_PRELOAD_PREPEND=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43/lib/libdarshan.so LMOD_SYSTEM_DEFAULT_MODULES=DefApps SSH_CLIENT=160.91.202.153 48422 22 LOGNAME=adams ACLOCAL_PATH=/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/share/aclocal PATH=/sw/sources/lsf-tools/2.0/summit/bin:/sw/summit/xalt/1.2.0/bin:/sw/summit/forge/20.0.1/bin:/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin:/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin:/sw/summit/gcc/6.4.0/bin:/sw/summit/cuda/10.1.243/bin:/usr/bin:/usr/sbin:/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43/bin:/sw/sources/hpss/bin:/opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/etc:/opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/bin:/opt/ibm/csm/bin:/usr/local/bin:/usr/local/sbin:/opt/ibm/flightlog/bin:/opt/ibutils/bin:/opt/ibm/spectrum_mpi/jsm_pmix/bin:/opt/puppetlabs/bin:/usr/lpp/mmfs/bin TERM=xterm-256color CMAKE_PREFIX_PATH=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm:/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb:/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t:/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43 OPAL_LIBDIR=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib MEMBERWORK=/gpfs/alpine/scratch/adams LSF_LIBDIR=/opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/lib OLCF_CMAKE_ROOT=/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t _ModuleTable003_=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 XALT_OLCF=1 __LMOD_Priority_PATH=/sw/sources/lsf-tools/2.0/summit/bin:-9999;/sw/summit/xalt/1.2.0/bin:-9999 OMPI_DIR=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb OLCF_FAMILY_COMPILER_VERSION=6.4.0 BASH_FUNC_ml()=() { eval $($LMOD_DIR/ml_cmd "$@") } PAMI_IBV_QP_SERVICE_LEVEL=8 MPI_ROOT=/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb WORLDWORK=/gpfs/alpine/world-shared LMOD_sys=Linux LOADEDMODULES=hsi/5.0.2.p5:xalt/1.2.0:lsf-tools/2.0:darshan-runtime/3.1.7:DefApps:cuda/10.1.243:gcc/6.4.0:cmake/3.15.2:spectrum-mpi/10.3.1.2-20200121:netlib-lapack/3.8.0:forge/20.0.1 LMOD_ROOT=/sw/summit/lmod HISTCONTROL=ignoredups PWD=/gpfs/alpine/scratch/adams/csc314/petsc _ModuleTable004_=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 BINARY_TYPE_HPC= OLCF_HSI_ROOT=/sw/sources/hpss ================================================================================ TEST resetEnvCompilers from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1701) TESTING: resetEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:1701) ================================================================================ TEST checkEnvCompilers from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1731) TESTING: checkEnvCompilers from config.setCompilers(config/BuildSystem/config/setCompilers.py:1731) ================================================================================ TEST checkMPICompilerOverride from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1664) TESTING: checkMPICompilerOverride from config.setCompilers(config/BuildSystem/config/setCompilers.py:1664) 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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1685) TESTING: requireMpiLdPath from config.setCompilers(config/BuildSystem/config/setCompilers.py:1685) OpenMPI wrappers require LD_LIBRARY_PATH set ================================================================================ TEST checkInitialFlags from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:434) TESTING: checkInitialFlags from config.setCompilers(config/BuildSystem/config/setCompilers.py:434) Initialize the compiler and linker flags Initialized CFLAGS to Initialized CFLAGS to Initialized LDFLAGS to Initialized CUDAFLAGS to Initialized CUDAFLAGS to Initialized LDFLAGS to Initialized CXXFLAGS to Initialized CXX_CXXFLAGS to Initialized LDFLAGS to Initialized FFLAGS to Initialized FFLAGS to Initialized LDFLAGS to Initialized CPPFLAGS to Initialized FPPFLAGS to Initialized CUDAPPFLAGS to -Wno-deprecated-gpu-targets Initialized CXXPPFLAGS 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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:604) TESTING: checkCCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:604) Locate a functional C compiler Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mpicc...not found Checking for program /sw/summit/xalt/1.2.0/bin/mpicc...not found Checking for program /sw/summit/forge/20.0.1/bin/mpicc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mpicc...found Defined make macro "CC" to "mpicc" All intermediate test results are stored in /tmp/petsc-1iOaOB All intermediate test results are stored in /tmp/petsc-1iOaOB/config.setCompilers Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Testing executable /tmp/petsc-1iOaOB/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-1iOaOB/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-1iOaOB/config.setCompilers/conftest Running Executable WITHOUT threads to time it out Executing: mpicc --version stdout: gcc (GCC) 6.4.0 Copyright (C) 2017 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. Since MPI c compiler starts with mpi, force searches for other compilers to only look for MPI compilers ================================================================================ TEST checkCPreprocessor from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:643) TESTING: checkCPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:643) Locate a functional C preprocessor Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mpicc...not found Checking for program /sw/summit/xalt/1.2.0/bin/mpicc...not found Checking for program /sw/summit/forge/20.0.1/bin/mpicc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mpicc...found Defined make macro "CPP" to "mpicc -E" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: ================================================================================ TEST checkCUDACompiler from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:679) TESTING: checkCUDACompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:679) Locate a functional CUDA compiler Checking for program /sw/sources/lsf-tools/2.0/summit/bin/nvcc...not found Checking for program /sw/summit/xalt/1.2.0/bin/nvcc...not found Checking for program /sw/summit/forge/20.0.1/bin/nvcc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/nvcc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/nvcc...not found Checking for program /sw/summit/gcc/6.4.0/bin/nvcc...not found Checking for program /sw/summit/cuda/10.1.243/bin/nvcc...found Defined make macro "CUDAC" to "nvcc" Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: nvcc --version stdout: nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2019 NVIDIA Corporation Built on Sun_Jul_28_19:07:52_PDT_2019 Cuda compilation tools, release 10.1, V10.1.243 ================================================================================ TEST checkCUDAPreprocessor from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:719) TESTING: checkCUDAPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:719) Locate a functional CUDA preprocessor Checking for program /sw/sources/lsf-tools/2.0/summit/bin/nvcc...not found Checking for program /sw/summit/xalt/1.2.0/bin/nvcc...not found Checking for program /sw/summit/forge/20.0.1/bin/nvcc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/nvcc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/nvcc...not found Checking for program /sw/summit/gcc/6.4.0/bin/nvcc...not found Checking for program /sw/summit/cuda/10.1.243/bin/nvcc...found Defined make macro "CUDAPP" to "nvcc -E" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include __global__ void testFunction() {return;}; Running Executable WITHOUT threads to time it out Executing: nvcc -E -I/tmp/petsc-1iOaOB/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Preprocess stderr before filtering:: Preprocess stderr after filtering:: ================================================================================ TEST checkCxxCompiler from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:818) TESTING: checkCxxCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:818) Locate a functional Cxx compiler Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mpicxx...not found Checking for program /sw/summit/xalt/1.2.0/bin/mpicxx...not found Checking for program /sw/summit/forge/20.0.1/bin/mpicxx...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mpicxx...found Defined make macro "CXX" to "mpicxx" Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -lpetsc-ufod4vtr9mqHvKIQiVAm Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lpetsc-ufod4vtr9mqHvKIQiVAm collect2: error: ld returned 1 exit status Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Testing executable /tmp/petsc-1iOaOB/config.setCompilers/conftest to see if it can be run Executing: /tmp/petsc-1iOaOB/config.setCompilers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-1iOaOB/config.setCompilers/conftest Running Executable WITHOUT threads to time it out Executing: mpicxx --version stdout: g++ (GCC) 6.4.0 Copyright (C) 2017 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. ================================================================================ TEST checkCxxPreprocessor from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:859) TESTING: checkCxxPreprocessor from config.setCompilers(config/BuildSystem/config/setCompilers.py:859) Locate a functional Cxx preprocessor Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mpicxx...not found Checking for program /sw/summit/xalt/1.2.0/bin/mpicxx...not found Checking for program /sw/summit/forge/20.0.1/bin/mpicxx...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mpicxx...found Defined make macro "CXXPP" to "mpicxx -E" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicxx -E -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Preprocess stderr before filtering:: Preprocess stderr after filtering:: ================================================================================ TEST checkFortranCompiler from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:960) TESTING: checkFortranCompiler from config.setCompilers(config/BuildSystem/config/setCompilers.py:960) Locate a functional Fortran compiler ================================================================================ TEST checkLargeFileIO from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1150) TESTING: checkLargeFileIO from config.setCompilers(config/BuildSystem/config/setCompilers.py:1150) ================================================================================ TEST checkArchiver from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1249) TESTING: checkArchiver from config.setCompilers(config/BuildSystem/config/setCompilers.py:1249) Check that the archiver exists and can make a library usable by the compiler Running Executable WITHOUT threads to time it out Executing: ar -V stdout: GNU ar version 2.27-34.base.el7_6.1 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. Running Executable WITHOUT threads to time it out Executing: ar -V stdout: GNU ar version 2.27-34.base.el7_6.1 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" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /sw/sources/lsf-tools/2.0/summit/bin/ar...not found Checking for program /sw/summit/xalt/1.2.0/bin/ar...not found Checking for program /sw/summit/forge/20.0.1/bin/ar...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/ar...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ar...not found Checking for program /sw/summit/gcc/6.4.0/bin/ar...not found Checking for program /sw/summit/cuda/10.1.243/bin/ar...not found Checking for program /usr/bin/ar...found Defined make macro "AR" to "/usr/bin/ar" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/ranlib...not found Checking for program /sw/summit/xalt/1.2.0/bin/ranlib...not found Checking for program /sw/summit/forge/20.0.1/bin/ranlib...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/ranlib...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ranlib...not found Checking for program /sw/summit/gcc/6.4.0/bin/ranlib...not found Checking for program /sw/summit/cuda/10.1.243/bin/ranlib...not found Checking for program /usr/bin/ranlib...found Defined make macro "RANLIB" to "/usr/bin/ranlib -c" Running Executable WITHOUT threads to time it out Executing: /usr/bin/ar cr /tmp/petsc-1iOaOB/config.setCompilers/libconf1.a /tmp/petsc-1iOaOB/config.setCompilers/conf1.o Running Executable WITHOUT threads to time it out Executing: /usr/bin/ranlib -c /tmp/petsc-1iOaOB/config.setCompilers/libconf1.a Possible ERROR while running ranlib: stderr: /usr/bin/ranlib: invalid option -- 'c' Ranlib is not functional with your archiver. Try --with-ranlib=true if ranlib is unnecessary. Running Executable WITHOUT threads to time it out Executing: ar -V stdout: GNU ar version 2.27-34.base.el7_6.1 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. Running Executable WITHOUT threads to time it out Executing: ar -V stdout: GNU ar version 2.27-34.base.el7_6.1 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" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int foo(int a) { return a+1; } Checking for program /sw/sources/lsf-tools/2.0/summit/bin/ar...not found Checking for program /sw/summit/xalt/1.2.0/bin/ar...not found Checking for program /sw/summit/forge/20.0.1/bin/ar...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/ar...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ar...not found Checking for program /sw/summit/gcc/6.4.0/bin/ar...not found Checking for program /sw/summit/cuda/10.1.243/bin/ar...not found Checking for program /usr/bin/ar...found Defined make macro "AR" to "/usr/bin/ar" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/ranlib...not found Checking for program /sw/summit/xalt/1.2.0/bin/ranlib...not found Checking for program /sw/summit/forge/20.0.1/bin/ranlib...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/ranlib...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ranlib...not found Checking for program /sw/summit/gcc/6.4.0/bin/ranlib...not found Checking for program /sw/summit/cuda/10.1.243/bin/ranlib...not found Checking for program /usr/bin/ranlib...found Defined make macro "RANLIB" to "/usr/bin/ranlib" Running Executable WITHOUT threads to time it out Executing: /usr/bin/ar cr /tmp/petsc-1iOaOB/config.setCompilers/libconf1.a /tmp/petsc-1iOaOB/config.setCompilers/conf1.o Running Executable WITHOUT threads to time it out Executing: /usr/bin/ranlib /tmp/petsc-1iOaOB/config.setCompilers/libconf1.a Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -L/tmp/petsc-1iOaOB/config.setCompilers -lconf1 Defined make macro "AR_FLAGS" to "cr" Defined make macro "AR_LIB_SUFFIX" to "a" ================================================================================ TEST checkSharedLinker from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1363) TESTING: checkSharedLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1363) Check that the linker can produce shared libraries Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Checking shared linker mpicc using flags ['-shared'] Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mpicc...not found Checking for program /sw/summit/xalt/1.2.0/bin/mpicc...not found Checking for program /sw/summit/forge/20.0.1/bin/mpicc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mpicc...found Defined make macro "LD_SHARED" to "mpicc" Trying C compiler flag Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Valid C linker flag -shared Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/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();} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/libconftest.so -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -L/tmp/petsc-1iOaOB/config.setCompilers -lconftest Using shared linker mpicc with flags ['-shared'] and library extension so Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux ================================================================================ TEST checkPIC from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1097) TESTING: checkPIC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1097) Determine the PIC option for each compiler Trying Cxx for PIC code without any compiler flag Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc 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();} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/libconftest.so -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Accepted Cxx PIC code without compiler flag Trying CUDA for PIC code without any compiler flag Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu 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();} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/libconftest.so -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Accepted CUDA PIC code without compiler flag ================================================================================ TEST checkSharedLinkerPaths from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1475) TESTING: checkSharedLinkerPaths from config.setCompilers(config/BuildSystem/config/setCompilers.py:1475) Determine the shared linker path options - IRIX: -rpath - Linux, OSF: -Wl,-rpath, - Solaris: -R - FreeBSD: -Wl,-R, Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Running Executable WITHOUT threads to time it out Executing: mpicc -V Trying C linker flag -Wl,-rpath, Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Valid C linker flag -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Running Executable WITHOUT threads to time it out Executing: mpicc -V Trying Cxx linker flag -Wl,-rpath, Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.setCompilers/conftest -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Valid Cxx linker flag -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Running Executable WITHOUT threads to time it out Executing: mpicc -V Trying CUDA linker flag -Wl,-rpath, Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: nvcc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Valid CUDA linker flag -Wl,-rpath,/gpfs/alpine/csc314/scratch/adams/petsc ================================================================================ TEST checkLibC from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1510) TESTING: checkLibC from config.setCompilers(config/BuildSystem/config/setCompilers.py:1510) Test whether we need to explicitly include libc in shared linking - Mac OSX requires an explicit reference to libc for shared linking Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {void *chunk = malloc(31); free(chunk); return 0;} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/libconftest.so -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o Shared linking does not require an explicit libc reference ================================================================================ TEST checkDynamicLinker from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1556) TESTING: checkDynamicLinker from config.setCompilers(config/BuildSystem/config/setCompilers.py:1556) Check that the linker can dynamicaly load shared libraries Checking for header: dlfcn.h All intermediate test results are stored in /tmp/petsc-1iOaOB/config.headers Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/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-1iOaOB/config.libraries Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest /tmp/petsc-1iOaOB/config.libraries/conftest.o -ldl Defined "HAVE_LIBDL" to "1" Adding ['dl'] to LIBS Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Checking dynamic linker mpicc using flags ['-shared'] Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mpicc...not found Checking for program /sw/summit/xalt/1.2.0/bin/mpicc...not found Checking for program /sw/summit/forge/20.0.1/bin/mpicc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mpicc...found Defined make macro "DYNAMICLINKER" to "mpicc" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -ldl Valid C linker flag -shared Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int foo(void) {printf("test");return 0;} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/libconftest.so -shared /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -ldl Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { void *handle = dlopen("/tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/conftest /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -ldl Using dynamic linker mpicc with flags ['-shared'] and library extension so ================================================================================ TEST output from config.setCompilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/setCompilers.py:1605) TESTING: output from config.setCompilers(config/BuildSystem/config/setCompilers.py:1605) Output module data as defines and substitutions Substituting "CC" with "mpicc" Substituting "CFLAGS" with "" Defined make macro "CC_LINKER_SLFLAG" to "-Wl,-rpath," Substituting "CPP" with "mpicc -E" Substituting "CPPFLAGS" with "" Substituting "CUDAC" with "nvcc" Substituting "CUDAFLAGS" with "" Substituting "CUDAPP" with "nvcc -E" Substituting "CUDAPPFLAGS" with "-Wno-deprecated-gpu-targets" Substituting "CXX" with "mpicxx" Substituting "CXX_CXXFLAGS" with "" Substituting "CXXFLAGS" with "" Substituting "CXX_LINKER_SLFLAG" with "-Wl,-rpath," Substituting "CXXPP" with "mpicxx -E" Substituting "CXXPPFLAGS" with "" Substituting "FC" with "" Substituting "LDFLAGS" with "" Substituting "LIBS" with "-ldl " Substituting "SHARED_LIBRARY_FLAG" with "-shared" child config.setCompilers 11.451713 ================================================================================ TEST checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/sharedLibraries.py:36) TESTING: checkSharedDynamicPicOptions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:36) ================================================================================ TEST configureSharedLibraries from PETSc.options.sharedLibraries(/gpfs/alpine/csc314/scratch/adams/petsc/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 Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Defined make rule "shared_arch" with dependencies "shared_linux" and code [] Defined make macro "SONAME_FUNCTION" to "$(1).so.$(2)" Defined make macro "SL_LINKER_FUNCTION" to "-shared -Wl,-soname,$(call SONAME_FUNCTION,$(notdir $(1)),$(2))" Defined make macro "BUILDSHAREDLIB" to "yes" Defined "USE_SHARED_LIBRARIES" to "1" ================================================================================ TEST configureDynamicLibraries from PETSc.options.sharedLibraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/sharedLibraries.py:94) TESTING: configureDynamicLibraries from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:94) Checks whether dynamic loading is available (with dlfcn.h and libdl) Defined "HAVE_DYNAMIC_LIBRARIES" to "1" ================================================================================ TEST configureSerializedFunctions from PETSc.options.sharedLibraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/sharedLibraries.py:100) TESTING: configureSerializedFunctions from PETSc.options.sharedLibraries(config/PETSc/options/sharedLibraries.py:100) Defines PETSC_SERIALIZE_FUNCTIONS if they are used Requires shared libraries child PETSc.options.sharedLibraries 0.007356 ================================================================================ TEST configureIndexSize from PETSc.options.indexTypes(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/indexTypes.py:39) TESTING: configureIndexSize from PETSc.options.indexTypes(config/PETSc/options/indexTypes.py:39) Defined make macro "PETSC_INDEX_SIZE" to "32" child PETSc.options.indexTypes 0.001649 ================================================================================ TEST configureCompilerFlags from config.compilerFlags(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilerFlags.py:72) TESTING: configureCompilerFlags from config.compilerFlags(config/BuildSystem/config/compilerFlags.py:72) Get the default compiler flags Defined make macro "C_VERSION" to "gcc (GCC) 6.4.0" Defined make macro "MPICC_SHOW" to "gcc -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm" Trying C compiler flag -Wall Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wall Trying C compiler flag -Wwrite-strings Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wwrite-strings Trying C compiler flag -Wno-strict-aliasing Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wno-strict-aliasing Trying C compiler flag -Wno-unknown-pragmas Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -Wno-unknown-pragmas Trying C compiler flag -fstack-protector Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -fstack-protector Trying C compiler flag -mfp16-format=ieee Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -mfp16-format=ieee /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Possible ERROR while running compiler: exit code 1 stderr: gcc: error: unrecognized command line option '-mfp16-format=ieee' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -mfp16-format=ieee due to nonzero status from link Rejecting compiler flag -mfp16-format=ieee due to gcc: error: unrecognized command line option '-mfp16-format=ieee' PETSc Error: No output file produced Rejected C compiler flag -mfp16-format=ieee Trying C compiler flag -fvisibility=hidden Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -fvisibility=hidden Trying C compiler flag -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 Defined make macro "Cxx_VERSION" to "g++ (GCC) 6.4.0" Defined make macro "MPICXX_SHOW" to "g++ -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm" Trying Cxx compiler flag -Wall Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wall Trying Cxx compiler flag -Wwrite-strings Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wwrite-strings Trying Cxx compiler flag -Wno-strict-aliasing Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wno-strict-aliasing Trying Cxx compiler flag -Wno-unknown-pragmas Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -Wno-unknown-pragmas Trying Cxx compiler flag -fstack-protector Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -fstack-protector Trying Cxx compiler flag -fvisibility=hidden Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -fvisibility=hidden Trying Cxx compiler flag -g -O2 -fPIC -fopenmp Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -g -O2 -fPIC -fopenmp Defined make macro "CUDA_VERSION" to "nvcc: NVIDIA (R) Cuda compiler driver" Defined make macro "MPICC_SHOW" to "Unavailable" Trying CUDA compiler flag -O2 -g Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added CUDA compiler flag -O2 -g child config.compilerFlags 1.739163 Running Executable WITHOUT threads to time it out Executing: mpicc --help | head -n 20 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 ================================================================================ TEST checkRestrict from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:150) TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:150) Check for the C/CXX restrict keyword Running Executable WITHOUT threads to time it out Executing: mpicc -V All intermediate test results are stored in /tmp/petsc-1iOaOB/config.compilers Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.compilers/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.compilers/conftest.c:5:20: warning: unused variable 'x' [-Wunused-variable] float * __restrict x;; ^ Source: #include "confdefs.h" #include "conffix.h" int main() { float * __restrict x;; return 0; } compilers: Set C restrict keyword to __restrict Defined "C_RESTRICT" to "__restrict" ================================================================================ TEST checkCFormatting from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:405) TESTING: checkCFormatting from config.compilers(config/BuildSystem/config/compilers.py:405) Activate format string checking if using the GNU compilers ================================================================================ TEST checkCInline from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:120) TESTING: checkCInline from config.compilers(config/BuildSystem/config/compilers.py:120) Check for C inline keyword Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:416) TESTING: checkDynamicLoadFlag from config.compilers(config/BuildSystem/config/compilers.py:416) Checks that dlopen() takes RTLD_XXX, and defines PETSC_HAVE_RTLD_XXX if it does Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include char *libname; int main() { dlopen(libname, RTLD_LAZY);dlopen(libname, RTLD_NOW);dlopen(libname, RTLD_LOCAL);dlopen(libname, RTLD_GLOBAL); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.compilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.o -ldl Defined "HAVE_RTLD_LAZY" to "1" Defined "HAVE_RTLD_NOW" to "1" Defined "HAVE_RTLD_LOCAL" to "1" Defined "HAVE_RTLD_GLOBAL" to "1" ================================================================================ TEST checkCLibraries from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:214) TESTING: checkCLibraries from config.compilers(config/BuildSystem/config/compilers.py:214) Determines the libraries needed to link with C compiled code Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include void asub(void) {char s[16];printf("testing %s",s);} Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.compilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.compilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.compilers/conftest.o /tmp/petsc-1iOaOB/config.compilers/confc.o -ldl C libraries are not needed when using C++ linker ================================================================================ TEST checkDependencyGenerationFlag from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:1363) TESTING: checkDependencyGenerationFlag from config.compilers(config/BuildSystem/config/compilers.py:1363) 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" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -MMD -MP /tmp/petsc-1iOaOB/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" Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -MMD -MP /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Trying CUDA compiler flag -MMD -MP Rejected CUDA compiler flag -MMD -MP Trying CUDA compiler flag -MMD Rejected CUDA compiler flag -MMD Trying CUDA compiler flag -xMMD Rejected CUDA compiler flag -xMMD Trying CUDA compiler flag -qmakedep=gcc Rejected CUDA compiler flag -qmakedep=gcc Trying CUDA compiler flag -MD Rejected CUDA compiler flag -MD Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -MMD -MP -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Possible ERROR while running compiler: exit code 1 stderr: nvcc fatal : Unknown option 'MMD' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -MMD -MP due to nonzero status from link Rejecting compiler flag -MMD -MP due to nvcc fatal : Unknown option 'MMD' PETSc Error: No output file produced Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -MMD -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Possible ERROR while running compiler: exit code 1 stderr: nvcc fatal : Unknown option 'MMD' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -MMD due to nonzero status from link Rejecting compiler flag -MMD due to nvcc fatal : Unknown option 'MMD' PETSc Error: No output file produced Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -xMMD -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Possible ERROR while running compiler: exit code 1 stderr: nvcc fatal : Unknown option 'xMMD' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -xMMD due to nonzero status from link Rejecting compiler flag -xMMD due to nvcc fatal : Unknown option 'xMMD' PETSc Error: No output file produced Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -qmakedep=gcc -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Possible ERROR while running compiler: exit code 1 stderr: nvcc fatal : Unknown option 'qmakedep' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -qmakedep=gcc due to nonzero status from link Rejecting compiler flag -qmakedep=gcc due to nvcc fatal : Unknown option 'qmakedep' PETSc Error: No output file produced Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -MD -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Possible ERROR while running compiler: exit code 1 stderr: nvcc fatal : Unknown option 'MD' Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Rejecting compiler flag -MD due to nonzero status from link Rejecting compiler flag -MD due to nvcc fatal : Unknown option 'MD' PETSc Error: No output file produced ================================================================================ TEST checkC99Flag from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:1408) TESTING: checkC99Flag from config.compilers(config/BuildSystem/config/compilers.py:1408) Check for -std=c99 or equivalent flag Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.setCompilers/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.setCompilers/conftest.c:7:11: warning: variable 'x' set but not used [-Wunused-but-set-variable] float x[2],y; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { float x[2],y; y = FLT_ROUNDS; // c++ comment int j = 2; for (int i=0; i<2; i++){ x[i] = i*j*y; } ; return 0; } Accepted C99 compile flag: Defined "HAVE_C99" to "1" Running Executable WITHOUT threads to time it out Executing: mpicxx --help | head -n 20 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 ================================================================================ TEST checkRestrict from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:150) TESTING: checkRestrict from config.compilers(config/BuildSystem/config/compilers.py:150) Check for the C/CXX restrict keyword Running Executable WITHOUT threads to time it out Executing: mpicc -V Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.compilers/conftest.cc Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.compilers/conftest.cc: In function 'int main()': /tmp/petsc-1iOaOB/config.compilers/conftest.cc:5:20: warning: unused variable 'x' [-Wunused-variable] float * __restrict x;; ^ Source: #include "confdefs.h" #include "conffix.h" int main() { float * __restrict x;; return 0; } compilers: Set Cxx restrict keyword to __restrict Defined "CXX_RESTRICT" to "__restrict" ================================================================================ TEST checkCxxOptionalExtensions from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:435) TESTING: checkCxxOptionalExtensions from config.compilers(config/BuildSystem/config/compilers.py:435) Check whether the C++ compiler (IBM xlC, OSF5) need special flag for .c files which contain C++ Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:135) TESTING: checkCxxInline from config.compilers(config/BuildSystem/config/compilers.py:135) Check for C++ inline keyword Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:547) TESTING: checkCxxLibraries from config.compilers(config/BuildSystem/config/compilers.py:547) Determines the libraries needed to link with C++ from C and Fortran Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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"; }} Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.compilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.o /tmp/petsc-1iOaOB/config.compilers/confc.o -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.compilers/confc.o: In function `asub()': /tmp/petsc-1iOaOB/config.compilers/conftest.cc:7: undefined reference to `__cxa_allocate_exception' /tmp/petsc-1iOaOB/config.compilers/conftest.cc:7: undefined reference to `__cxa_throw' /tmp/petsc-1iOaOB/config.compilers/conftest.cc:7: undefined reference to `__cxa_begin_catch' /tmp/petsc-1iOaOB/config.compilers/conftest.cc:7: undefined reference to `std::basic_ostream >& std::operator<< >(std::basic_ostream >&, char const*)' /tmp/petsc-1iOaOB/config.compilers/conftest.cc:7: undefined reference to `__cxa_end_catch' /tmp/petsc-1iOaOB/config.compilers/conftest.cc:7: undefined reference to `__cxa_end_catch' /tmp/petsc-1iOaOB/config.compilers/confc.o:(.toc+0x0): undefined reference to `typeinfo for int' /tmp/petsc-1iOaOB/config.compilers/confc.o:(.toc+0x8): undefined reference to `std::cout' /tmp/petsc-1iOaOB/config.compilers/confc.o:(.toc+0x10): undefined reference to `std::ios_base::Init::~Init()' /tmp/petsc-1iOaOB/config.compilers/confc.o: In function `__static_initialization_and_destruction_0': /autofs/nccs-svm1_sw/summit/gcc/6.4.0/include/c++/6.4.0/iostream:74: undefined reference to `std::ios_base::Init::Init()' /tmp/petsc-1iOaOB/config.compilers/confc.o:(.data.DW.ref._ZTIi[DW.ref._ZTIi]+0x0): undefined reference to `typeinfo for int' /tmp/petsc-1iOaOB/config.compilers/confc.o:(.data.DW.ref.__gxx_personality_v0[DW.ref.__gxx_personality_v0]+0x0): undefined reference to `__gxx_personality_v0' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.compilers/conftest' collect2: error: ld returned 1 exit status Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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"; }} Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.compilers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main(int argc,char **args) {return 0;} Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.compilers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.compilers/conftest.o /tmp/petsc-1iOaOB/config.compilers/confc.o -lstdc++ -ldl compilers: C++ requires -lstdc++ to link with C compiler ================================================================================ TEST checkCxxDialect from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:463) TESTING: checkCxxDialect from config.compilers(config/BuildSystem/config/compilers.py:463) Determine the Cxx dialect supported by the compiler [and correspoding compiler option - if any]. -with-cxx-dialect can take options: auto: use highest dialect configure can determine cxx17: [future?] cxx14: gnu++14 or c++14 cxx11: gnu++11 or c++11 0: disable CxxDialect check and use compiler default checkCxxDialect: checking CXX14 with flag: Defined "HAVE_CXX_DIALECT_CXX14" to "1" Defined "HAVE_CXX_DIALECT_CXX11" to "1" Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #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); std::cout << x; constexpr std::complex I(0.0,1.0); auto lambda = [](auto x, auto y) {return x + y;}; return lambda(3,4); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -V ================================================================================ TEST setupFrameworkCompilers from config.compilers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/compilers.py:1473) TESTING: setupFrameworkCompilers from config.compilers(config/BuildSystem/config/compilers.py:1473) child config.compilers 3.778688 ================================================================================ TEST configureClosure from config.utilities.closure(/gpfs/alpine/csc314/scratch/adams/petsc/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-1iOaOB/config.utilities.closure Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.closure/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.utilities.closure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.closure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.utilities.closure/conftest.c: In function 'main': /tmp/petsc-1iOaOB/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 child config.utilities.closure 0.049870 child config.compilersFortran 0.000026 ================================================================================ TEST checkStdC from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:105) TESTING: checkStdC from config.headers(config/BuildSystem/config/headers.py:105) Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.headers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.headers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include int main() { ; return 0; } Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.headers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.headers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.headers/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.headers/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.headers/conftest to see if it can be run Executing: /tmp/petsc-1iOaOB/config.headers/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-1iOaOB/config.headers/conftest ================================================================================ TEST checkStat from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:138) TESTING: checkStat from config.headers(config/BuildSystem/config/headers.py:138) Checks whether stat file-mode macros are broken, and defines STAT_MACROS_BROKEN if they are Preprocessing 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 Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c ================================================================================ TEST checkSysWait from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:173) TESTING: checkSysWait from config.headers(config/BuildSystem/config/headers.py:173) Check for POSIX.1 compatible sys/wait.h, and defines HAVE_SYS_WAIT_H if found Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.headers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.headers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:195) TESTING: checkTime from config.headers(config/BuildSystem/config/headers.py:195) Checks if you can safely include both and , and if so defines TIME_WITH_SYS_TIME Checking for header: time.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" Checking for header: sys/time.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIME_H" to "1" ================================================================================ TEST checkMath from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:201) TESTING: checkMath from config.headers(config/BuildSystem/config/headers.py:201) Checks for the math headers and defines Checking for header: math.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.headers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.headers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.headers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { double pi = M_PI; if (pi); ; return 0; } Found math #defines, like M_PI ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: setjmp.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SETJMP_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: dos.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: fcntl.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FCNTL_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: float.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: io.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: malloc.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MALLOC_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: pwd.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PWD_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: strings.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRINGS_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: unistd.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_UNISTD_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/sysinfo.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: machine/endian.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/param.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PARAM_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/procfs.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PROCFS_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/resource.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_RESOURCE_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/systeminfo.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/times.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIMES_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/utsname.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_UTSNAME_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/socket.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SOCKET_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/wait.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_WAIT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: netinet/in.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETINET_IN_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: netdb.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETDB_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: Direct.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: time.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: Ws2tcpip.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/types.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TYPES_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: WindowsX.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: float.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: ieeefp.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: stdint.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDINT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: pthread.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PTHREAD_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: inttypes.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_INTTYPES_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: immintrin.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: immintrin.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: immintrin.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: immintrin.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: zmmintrin.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: setjmp.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SETJMP_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: dos.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:17: fatal error: dos.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: fcntl.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FCNTL_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: float.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: io.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:16: fatal error: io.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: malloc.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_MALLOC_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: pwd.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PWD_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: strings.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STRINGS_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: unistd.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_UNISTD_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/sysinfo.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSINFO_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: machine/endian.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: machine/endian.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/param.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PARAM_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/procfs.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_PROCFS_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/resource.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_RESOURCE_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/systeminfo.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/times.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TIMES_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/utsname.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_UTSNAME_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/socket.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SOCKET_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/wait.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_WAIT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: netinet/in.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETINET_IN_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: netdb.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_NETDB_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: Direct.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: Direct.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: time.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_TIME_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: Ws2tcpip.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: Ws2tcpip.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: sys/types.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_TYPES_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: WindowsX.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:22: fatal error: WindowsX.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: float.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_FLOAT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: ieeefp.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: ieeefp.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: stdint.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_STDINT_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: pthread.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_PTHREAD_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: inttypes.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_INTTYPES_H" to "1" ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: immintrin.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: immintrin.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: immintrin.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: immintrin.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST check from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:77) TESTING: check from config.headers(config/BuildSystem/config/headers.py:77) Checks for "header", and defines HAVE_"header" if found Checking for header: zmmintrin.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:23: fatal error: zmmintrin.h: No such file or directory #include ^compilation terminated.: ================================================================================ TEST checkRecursiveMacros from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:216) TESTING: checkRecursiveMacros from config.headers(config/BuildSystem/config/headers.py:216) Checks that the preprocessor allows recursive macros, and if not defines HAVE_BROKEN_RECURSIVE_MACRO Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.headers/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.headers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } child config.headers 3.877491 ================================================================================ TEST configureCacheDetails from config.utilities.cacheDetails(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/cacheDetails.py:78) TESTING: configureCacheDetails from config.utilities.cacheDetails(config/BuildSystem/config/utilities/cacheDetails.py:78) Try to determine the size and associativity of the cache. All intermediate test results are stored in /tmp/petsc-1iOaOB/config.utilities.cacheDetails Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include long getconf_LEVEL1_DCACHE_LINESIZE() { long val = sysconf(_SC_LEVEL1_DCACHE_LINESIZE); return (16 <= val && val <= 2147483647) ? val : 32; } int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest to see if it can be run Executing: /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-1iOaOB/config.utilities.cacheDetails/conftest Defined "LEVEL1_DCACHE_LINESIZE" to "32" child config.utilities.cacheDetails 0.473076 ================================================================================ TEST check_struct_sigaction from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:43) TESTING: check_struct_sigaction from config.types(config/BuildSystem/config/types.py:43) 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-1iOaOB/config.types Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:18: warning: unused variable 'a' [-Wunused-variable] struct sigaction a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include int main() { struct sigaction a;; return 0; } struct sigaction found Defined "HAVE_STRUCT_SIGACTION" to "1" ================================================================================ TEST check__int64 from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:49) TESTING: check__int64 from config.types(config/BuildSystem/config/types.py:49) Checks if __int64 exists. This is primarily for windows. Checking for type: __int64 Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:1: error: unknown type name '__int64' __int64 a;; ^~~~~~~ /tmp/petsc-1iOaOB/config.types/conftest.c:11:9: warning: unused variable 'a' [-Wunused-variable] __int64 a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { __int64 a;; return 0; } __int64 found ================================================================================ TEST checkSizeTypes from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:55) TESTING: checkSizeTypes from config.types(config/BuildSystem/config/types.py:55) Checks for types associated with sizes, such as size_t. Checking for type: size_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:8: warning: unused variable 'a' [-Wunused-variable] size_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { size_t a;; return 0; } size_t found ================================================================================ TEST checkFileTypes from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:65) TESTING: checkFileTypes from config.types(config/BuildSystem/config/types.py:65) Checks for types associated with files, such as mode_t, off_t, etc. Checking for type: mode_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:8: warning: unused variable 'a' [-Wunused-variable] mode_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { mode_t a;; return 0; } mode_t found Checking for type: off_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:7: warning: unused variable 'a' [-Wunused-variable] off_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { off_t a;; return 0; } off_t found ================================================================================ TEST checkIntegerTypes from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:60) TESTING: checkIntegerTypes from config.types(config/BuildSystem/config/types.py:60) Checks for types associated with integers, such as int32_t. Checking for type: int32_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:9: warning: unused variable 'a' [-Wunused-variable] int32_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { int32_t a;; return 0; } int32_t found ================================================================================ TEST checkPID from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:71) TESTING: checkPID from config.types(config/BuildSystem/config/types.py:71) Checks for pid_t, and defines it if necessary Checking for type: pid_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:7: warning: unused variable 'a' [-Wunused-variable] pid_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { pid_t a;; return 0; } pid_t found ================================================================================ TEST checkUID from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:75) TESTING: checkUID from config.types(config/BuildSystem/config/types.py:75) Checks for uid_t and gid_t, and defines them if necessary Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.types/conftest.c ================================================================================ TEST checkC99Complex from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:82) TESTING: checkC99Complex from config.types(config/BuildSystem/config/types.py:82) Check for complex numbers in in C99 std Note that since PETSc source code uses _Complex we test specifically for that, not complex Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:6:17: warning: variable 'x' set but not used [-Wunused-but-set-variable] double _Complex x; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:6:17: warning: variable 'x' set but not used [-Wunused-but-set-variable] double _Complex x; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double _Complex x; x = I; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.types/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.o -lstdc++ -ldl Defined "HAVE_C99_COMPLEX" to "1" ================================================================================ TEST checkCxxComplex from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:93) TESTING: checkCxxComplex from config.types(config/BuildSystem/config/types.py:93) Check for complex numbers in namespace std Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.compilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.types/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { std::complex x; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.types/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.types/conftest.o -lstdc++ -ldl Defined "HAVE_CXX_COMPLEX" to "1" ================================================================================ TEST checkConst from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:104) TESTING: checkConst from config.types(config/BuildSystem/config/types.py:104) Checks for working const, and if not found defines it to empty string Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:25:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (x[0]); ^~ /tmp/petsc-1iOaOB/config.types/conftest.c:26:5: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the 'if' { /* SCO 3.2v4 cc rejects this. */ ^ /tmp/petsc-1iOaOB/config.types/conftest.c:30:9: warning: 't' is used uninitialized in this function [-Wuninitialized] *t++ = 0; ~^~ /tmp/petsc-1iOaOB/config.types/conftest.c:46:25: warning: 'b' is used uninitialized in this function [-Wuninitialized] struct s *b; b->j = 5; ~~~~~^~~ Source: #include "confdefs.h" #include "conffix.h" int main() { /* Ultrix mips cc rejects this. */ typedef int charset[2]; const charset x; /* SunOS 4.1.1 cc rejects this. */ char const *const *ccp; char **p; /* NEC SVR4.0.2 mips cc rejects this. */ struct point {int x, y;}; static struct point const zero = {0,0}; /* AIX XL C 1.02.0.0 rejects this. It does not let you subtract one const X* pointer from another in an arm of an if-expression whose if-part is not a constant expression */ const char *g = "string"; ccp = &g + (g ? g-g : 0); /* HPUX 7.0 cc rejects these. */ ++ccp; p = (char**) ccp; ccp = (char const *const *) p; /* This section avoids unused variable warnings */ if (zero.x); if (x[0]); { /* SCO 3.2v4 cc rejects this. */ char *t; char const *s = 0 ? (char *) 0 : (char const *) 0; *t++ = 0; if (*s); } { /* Someone thinks the Sun supposedly-ANSI compiler will reject this. */ int x[] = {25, 17}; const int *foo = &x[0]; ++foo; } { /* Sun SC1.0 ANSI compiler rejects this -- but not the above. */ typedef const int *iptr; iptr p = 0; ++p; } { /* AIX XL C 1.02.0.0 rejects this saying "k.c", line 2.27: 1506-025 (S) Operand must be a modifiable lvalue. */ struct s { int j; const int *ap[3]; }; struct s *b; b->j = 5; } { /* ULTRIX-32 V3.1 (Rev 9) vcc rejects this */ const int foo = 10; /* Get rid of unused variable warning */ if (foo); } ; return 0; } ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: short Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(short)==2)*2-1]; Defined "SIZEOF_SHORT" to "2" ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: int Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(int)==4)*2-1]; Defined "SIZEOF_INT" to "4" ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: enum Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(enum{ENUM_DUMMY})==4)*2-1]; Defined "SIZEOF_ENUM" to "4" ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: long Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(long)==8)*2-1]; Defined "SIZEOF_LONG" to "8" ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: void * Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(void *)==8)*2-1]; Defined "SIZEOF_VOID_P" to "8" ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: long long Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(long long)==8)*2-1]; Defined "SIZEOF_LONG_LONG" to "8" ================================================================================ TEST checkSizeof from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:160) TESTING: checkSizeof from config.types(config/BuildSystem/config/types.py:160) Determines the size of type "typeName", and defines SIZEOF_"typeName" to be the size Checking for size of type: size_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(size_t)==8)*2-1]; Defined "SIZEOF_SIZE_T" to "8" ================================================================================ TEST checkVisibility from config.types(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/types.py:194) TESTING: checkVisibility from config.types(config/BuildSystem/config/types.py:194) Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { __attribute__((visibility ("default"))) int foo(void);; return 0; } Defined "USE_VISIBILITY_C" to "1" Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.types -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.types/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { __attribute__((visibility ("default"))) int foo(void);; return 0; } Defined "USE_VISIBILITY_CXX" to "1" child config.types 2.268144 ================================================================================ TEST configureMemAlign from PETSc.options.memAlign(/gpfs/alpine/csc314/scratch/adams/petsc/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 child PETSc.options.memAlign 0.000713 ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lfpe -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lfpe collect2: error: ld returned 1 exit status ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lsocket -lnsl -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lsocket collect2: error: ld returned 1 exit status ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lfpe -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lfpe collect2: error: ld returned 1 exit status ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lsocket -lnsl -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: cannot find -lsocket collect2: error: ld returned 1 exit status ================================================================================ TEST checkMath from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:264) TESTING: checkMath from config.libraries(config/BuildSystem/config/libraries.py:264) Check for sin() in libm, the math library Checking for functions [sin floor log10 pow] in library [''] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: /tmp/petsc-1iOaOB/config.libraries/conftest.o: undefined reference to symbol 'log10@@GLIBC_2.17' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status Checking for functions [sin floor log10 pow] in library ['m'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" CheckMath: using math library ['libm.a'] ================================================================================ TEST checkMathErf from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:283) TESTING: checkMathErf from config.libraries(config/BuildSystem/config/libraries.py:283) Check for erf() in libm, the math library Checking for functions [erf] in library ['libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c: In function '_check_erf': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5:74: warning: variable 'y' set but not used [-Wunused-but-set-variable] static void _check_erf() { double (*checkErf)(double) = erf;double x = 0,y; y = (*checkErf)(x); } ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_erf() { double (*checkErf)(double) = erf;double x = 0,y; y = (*checkErf)(x); } int main() { _check_erf();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" erf() found Defined "HAVE_ERF" to "1" ================================================================================ TEST checkMathTgamma from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:292) TESTING: checkMathTgamma from config.libraries(config/BuildSystem/config/libraries.py:292) Check for tgamma() in libm, the math library Checking for functions [tgamma] in library ['libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c: In function '_check_tgamma': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5:83: warning: variable 'y' set but not used [-Wunused-but-set-variable] static void _check_tgamma() { double (*checkTgamma)(double) = tgamma;double x = 0,y; y = (*checkTgamma)(x); } ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_tgamma() { double (*checkTgamma)(double) = tgamma;double x = 0,y; y = (*checkTgamma)(x); } int main() { _check_tgamma();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" tgamma() found Defined "HAVE_TGAMMA" to "1" ================================================================================ TEST checkMathLgamma from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:301) TESTING: checkMathLgamma from config.libraries(config/BuildSystem/config/libraries.py:301) Check for lgamma() in libm, the math library Checking for functions [lgamma] in library ['libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include #include static void _check_lgamma() { double (*checkLgamma)(double) = lgamma;double x = 1,y; y = (*checkLgamma)(x);if (y != 0.) abort(); } int main() { _check_lgamma();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" lgamma() found Defined "HAVE_LGAMMA" to "1" ================================================================================ TEST checkMathFenv from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:314) TESTING: checkMathFenv from config.libraries(config/BuildSystem/config/libraries.py:314) Checks if can be used with FE_DFL_ENV Checking for functions [fesetenv] in library ['libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" Defined "HAVE_FENV_H" to "1" ================================================================================ TEST checkMathLog2 from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:322) TESTING: checkMathLog2 from config.libraries(config/BuildSystem/config/libraries.py:322) Check for log2() in libm, the math library Checking for functions [log2] in library ['libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c: In function '_check_log2': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5:81: warning: unused variable 'y' [-Wunused-variable] static void _check_log2() { double (*checkLog2)(double) = log2; double x = 2.5, y = (*checkLog2)(x); } ^ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_log2() { double (*checkLog2)(double) = log2; double x = 2.5, y = (*checkLog2)(x); } int main() { _check_log2();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lm -lstdc++ -ldl Defined "HAVE_LIBM" to "1" log2() found Defined "HAVE_LOG2" to "1" ================================================================================ TEST checkRealtime from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:331) TESTING: checkRealtime from config.libraries(config/BuildSystem/config/libraries.py:331) Check for presence of clock_gettime() in realtime library (POSIX Realtime extensions) Checking for functions [clock_gettime] in library [''] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl realtime functions are linked in by default ================================================================================ TEST checkDynamic from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:347) TESTING: checkDynamic from config.libraries(config/BuildSystem/config/libraries.py:347) Check for the header and libraries necessary for dynamic library manipulation Checking for functions [dlopen] in library ['dl'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -ldl -lstdc++ -ldl Defined "HAVE_LIBDL" to "1" Checking for header: dlfcn.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_DLFCN_H" to "1" child config.libraries 5.226226 ================================================================================ TEST configureLibraryOptions from PETSc.options.libraryOptions(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/libraryOptions.py:37) TESTING: configureLibraryOptions from PETSc.options.libraryOptions(config/PETSc/options/libraryOptions.py:37) Sets PETSC_USE_DEBUG, PETSC_USE_INFO, PETSC_USE_LOG, PETSC_USE_CTABLE, PETSC_USE_FORTRAN_KERNELS, and PETSC_USE_AVX512_KERNELS Defined "USE_LOG" to "1" Defined "USE_DEBUG" 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 [''] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_bgl_perfctr_void': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `bgl_perfctr_void' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status Checking for functions [ADIOI_BGL_Open] in library [''] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_ADIOI_BGL_Open': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `ADIOI_BGL_Open' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status *********BGL/IBM test failure Defined "USE_AVX512_KERNELS" to "1" Defined "Alignx(a,b)" to " " ================================================================================ TEST configureISColorValueType from PETSc.options.libraryOptions(/gpfs/alpine/csc314/scratch/adams/petsc/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 "USHRT_MAX" Defined "IS_COLOR_VALUE_TYPE" to "short" Defined "IS_COLOR_VALUE_TYPE_F" to "integer2" child PETSc.options.libraryOptions 0.778680 child config.atomics 0.000007 ================================================================================ TEST checkSysinfo from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:106) TESTING: checkSysinfo from config.functions(config/BuildSystem/config/functions.py:106) Check whether sysinfo takes three arguments, and if it does define HAVE_SYSINFO_3ARG Checking for functions [sysinfo] All intermediate test results are stored in /tmp/petsc-1iOaOB/config.functions Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SYSINFO" to "1" Checking for header: sys/sysinfo.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/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 Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:28: fatal error: sys/systeminfo.h: No such file or directory #include ^compilation terminated.: Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c:9:4: error: #error "Cannot check sysinfo without special headers" # error "Cannot check sysinfo without special headers" ^~~~~ /tmp/petsc-1iOaOB/config.functions/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.functions/conftest.c:13:30: 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_SYS_SYSINFO_H # include #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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:125) TESTING: checkVPrintf from config.functions(config/BuildSystem/config/functions.py:125) Checks whether vprintf requires a char * last argument, and if it does defines HAVE_VPRINTF_CHAR Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.functions/conftest.c:8:1: warning: 'Argp' is used uninitialized in this function [-Wuninitialized] vprintf( "%d", Argp ); ^~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp; vprintf( "%d", Argp ); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl ================================================================================ TEST checkVFPrintf from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:131) TESTING: checkVFPrintf from config.functions(config/BuildSystem/config/functions.py:131) Checks whether vfprintf requires a char * last argument, and if it does defines HAVE_VFPRINTF_CHAR Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.functions/conftest.c:8:1: warning: 'Argp' is used uninitialized in this function [-Wuninitialized] vfprintf(stdout, "%d", Argp ); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp; vfprintf(stdout, "%d", Argp ); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl ================================================================================ TEST checkVSNPrintf from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:137) TESTING: checkVSNPrintf from config.functions(config/BuildSystem/config/functions.py:137) Checks whether vsnprintf requires a char * last argument, and if it does defines HAVE_VSNPRINTF_CHAR Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.functions/conftest.c:8:1: warning: 'Argp' is used uninitialized in this function [-Wuninitialized] vsnprintf(str,5, "%d", Argp ); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { va_list Argp;char str[6]; vsnprintf(str,5, "%d", Argp ); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VSNPRINTF" to "1" ================================================================================ TEST checkNanosleep from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:167) TESTING: checkNanosleep from config.functions(config/BuildSystem/config/functions.py:167) Check for functional nanosleep() - as time.h behaves differently for different compiler flags - like -std=c89 Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_NANOSLEEP" to "1" ================================================================================ TEST checkMemmove from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:173) TESTING: checkMemmove from config.functions(config/BuildSystem/config/functions.py:173) Check for functional memmove() - as MS VC requires correct includes to for this test Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_MEMMOVE" to "1" ================================================================================ TEST checkSignalHandlerType from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:143) TESTING: checkSignalHandlerType from config.functions(config/BuildSystem/config/functions.py:143) Checks the type of C++ signals handlers, and defines SIGNAL_CAST to the correct value Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "SIGNAL_CAST" to " " ================================================================================ TEST checkFreeReturnType from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:153) TESTING: checkFreeReturnType from config.functions(config/BuildSystem/config/functions.py:153) Checks whether free returns void or int, and defines HAVE_FREE_RETURN_INT Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.functions/conftest.c:6:25: error: void value not ignored as it ought to be int ierr; void *p; ierr = free(p); return 0; ^ /tmp/petsc-1iOaOB/config.functions/conftest.c:6:5: warning: variable 'ierr' set but not used [-Wunused-but-set-variable] int ierr; void *p; ierr = free(p); return 0; ^~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int ierr; void *p; ierr = free(p); return 0; ; return 0; } Compile failed inside link ================================================================================ TEST checkVariableArgumentLists from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:159) TESTING: checkVariableArgumentLists from config.functions(config/BuildSystem/config/functions.py:159) Checks whether the variable argument list functionality is working Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_VA_COPY" to "1" ================================================================================ TEST checkClassify from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:85) TESTING: checkClassify from config.functions(config/BuildSystem/config/functions.py:85) 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 _access snprintf realpath dlsym bzero _getcwd _pipe getwd uname _lseek sleep _sleep lseek usleep dlclose gethostname clock access _snprintf dlerror fork getpagesize sbreak memalign getcwd gethostbyname readlink _set_output_format PXFGETARG strcasecmp dlopen drand48 socket popen getrusage _mkdir time stricmp] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c:16:6: warning: conflicting types for built-in function 'snprintf' char snprintf(); ^~~~~~~~ /tmp/petsc-1iOaOB/config.functions/conftest.c:19:6: warning: conflicting types for built-in function 'bzero' char bzero(); ^~~~~ /tmp/petsc-1iOaOB/config.functions/conftest.c:35:6: warning: conflicting types for built-in function 'fork' char fork(); ^~~~ /tmp/petsc-1iOaOB/config.functions/conftest.c:44:6: 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 _access(); char snprintf(); char realpath(); char dlsym(); char bzero(); char _getcwd(); char _pipe(); char getwd(); char uname(); char _lseek(); char sleep(); char _sleep(); char lseek(); char usleep(); char dlclose(); char gethostname(); char clock(); char access(); char _snprintf(); char dlerror(); char fork(); char getpagesize(); char sbreak(); char memalign(); char getcwd(); char gethostbyname(); char readlink(); char _set_output_format(); char PXFGETARG(); char strcasecmp(); char dlopen(); char drand48(); char socket(); char popen(); char getrusage(); char _mkdir(); char time(); 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__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_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__pipe) || defined (__stub____pipe) _pipe_will_always_fail_with_ENOSYS(); #else _pipe(); #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__sleep) || defined (__stub____sleep) _sleep_will_always_fail_with_ENOSYS(); #else _sleep(); #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_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_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_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_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_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_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__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_stricmp) || defined (__stub___stricmp) stricmp_will_always_fail_with_ENOSYS(); #else stricmp(); #endif ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:117: warning: the `getwd' function is dangerous and should not be used. /tmp/petsc-1iOaOB/config.functions/conftest.c:75: undefined reference to `_access' /tmp/petsc-1iOaOB/config.functions/conftest.c:105: undefined reference to `_getcwd' /tmp/petsc-1iOaOB/config.functions/conftest.c:111: undefined reference to `_pipe' /tmp/petsc-1iOaOB/config.functions/conftest.c:129: undefined reference to `_lseek' /tmp/petsc-1iOaOB/config.functions/conftest.c:141: undefined reference to `_sleep' /tmp/petsc-1iOaOB/config.functions/conftest.c:183: undefined reference to `_snprintf' /tmp/petsc-1iOaOB/config.functions/conftest.c:207: undefined reference to `sbreak' /tmp/petsc-1iOaOB/config.functions/conftest.c:237: undefined reference to `_set_output_format' /tmp/petsc-1iOaOB/config.functions/conftest.c:243: undefined reference to `PXFGETARG' /tmp/petsc-1iOaOB/config.functions/conftest.c:285: undefined reference to `_mkdir' /tmp/petsc-1iOaOB/config.functions/conftest.c:297: undefined reference to `stricmp' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [rand getdomainname realpath dlsym bzero uname usleep dlclose gethostname clock dlerror] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c:17:6: warning: conflicting types for built-in function 'bzero' char bzero(); ^~~~~ 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 dlerror(); #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_dlerror) || defined (__stub___dlerror) dlerror_will_always_fail_with_ENOSYS(); #else dlerror(); #endif ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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_DLERROR" to "1" Checking for functions [fork getpagesize memalign gethostbyname readlink strcasecmp dlopen drand48 socket popen getrusage time] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.c:13:6: warning: conflicting types for built-in function 'fork' char fork(); ^~~~ /tmp/petsc-1iOaOB/config.functions/conftest.c:18:6: 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 fork(); char getpagesize(); char memalign(); char gethostbyname(); char readlink(); char strcasecmp(); char dlopen(); char drand48(); char socket(); char popen(); char getrusage(); char time(); #ifdef __cplusplus } #endif int main() { #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_memalign) || defined (__stub___memalign) memalign_will_always_fail_with_ENOSYS(); #else memalign(); #endif #if defined (__stub_gethostbyname) || defined (__stub___gethostbyname) gethostbyname_will_always_fail_with_ENOSYS(); #else gethostbyname(); #endif #if defined (__stub_readlink) || defined (__stub___readlink) readlink_will_always_fail_with_ENOSYS(); #else readlink(); #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_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_time) || defined (__stub___time) time_will_always_fail_with_ENOSYS(); #else time(); #endif ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_FORK" to "1" Defined "HAVE_GETPAGESIZE" to "1" Defined "HAVE_MEMALIGN" to "1" Defined "HAVE_GETHOSTBYNAME" to "1" Defined "HAVE_READLINK" to "1" Defined "HAVE_STRCASECMP" to "1" Defined "HAVE_DLOPEN" to "1" Defined "HAVE_DRAND48" to "1" Defined "HAVE_SOCKET" to "1" Defined "HAVE_POPEN" to "1" Defined "HAVE_GETRUSAGE" to "1" Defined "HAVE_TIME" to "1" Checking for functions [_access] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_access' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [snprintf] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SNPRINTF" to "1" Checking for functions [_getcwd] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_getcwd' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [_pipe] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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 _pipe(); #ifdef __cplusplus } #endif int main() { #if defined (__stub__pipe) || defined (__stub____pipe) _pipe_will_always_fail_with_ENOSYS(); #else _pipe(); #endif ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_pipe' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [getwd] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: warning: the `getwd' function is dangerous and should not be used. Defined "HAVE_GETWD" to "1" Checking for functions [_lseek] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_lseek' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [sleep] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_SLEEP" to "1" Checking for functions [_sleep] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_sleep' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [lseek] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_LSEEK" to "1" Checking for functions [access] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_ACCESS" to "1" Checking for functions [_snprintf] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_snprintf' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [sbreak] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `sbreak' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [getcwd] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_GETCWD" to "1" Checking for functions [_set_output_format] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_set_output_format' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [PXFGETARG] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `PXFGETARG' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [_mkdir] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `_mkdir' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status Checking for functions [stricmp] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.functions/conftest.o: In function `main': /tmp/petsc-1iOaOB/config.functions/conftest.c:24: undefined reference to `stricmp' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.functions/conftest' collect2: error: ld returned 1 exit status ================================================================================ TEST checkMmap from config.functions(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/functions.py:179) TESTING: checkMmap from config.functions(config/BuildSystem/config/functions.py:179) Check for functional mmap() to allocate shared memory and define HAVE_MMAP Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.functions/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.functions/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.functions/conftest.o -lstdc++ -ldl Defined "HAVE_MMAP" to "1" child config.functions 11.914837 ================================================================================ TEST configureMemorySize from config.utilities.getResidentSetSize(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/getResidentSetSize.py:31) TESTING: configureMemorySize from config.utilities.getResidentSetSize(config/BuildSystem/config/utilities/getResidentSetSize.py:31) Try to determine how to measure the memory usage Defined "USE_PROC_FOR_SIZE" to "1" Using /proc for PetscMemoryGetCurrentUsage() child config.utilities.getResidentSetSize 0.000889 child config.utilities.fortranCommandLine 0.000009 ================================================================================ TEST configureFeatureTestMacros from config.utilities.featureTestMacros(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/featureTestMacros.py:13) TESTING: configureFeatureTestMacros from config.utilities.featureTestMacros(config/BuildSystem/config/utilities/featureTestMacros.py:13) Checks if certain feature test macros are support All intermediate test results are stored in /tmp/petsc-1iOaOB/config.utilities.featureTestMacros Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.featureTestMacros/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.utilities.featureTestMacros/conftest.c:4:20: fatal error: sysctl.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.featureTestMacros/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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" child config.utilities.featureTestMacros 0.225245 ================================================================================ TEST configureMissingUtypeTypedefs from config.utilities.missing(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/missing.py:55) TESTING: configureMissingUtypeTypedefs from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:55) Checks if u_short is undefined All intermediate test results are stored in /tmp/petsc-1iOaOB/config.utilities.missing Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c:6:9: warning: unused variable 'foo' [-Wunused-variable] u_short foo; ^~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { u_short foo; ; return 0; } ================================================================================ TEST configureMissingFunctions from config.utilities.missing(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/missing.py:61) TESTING: configureMissingFunctions from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:61) Checks for SOCKETS ================================================================================ TEST configureMissingSignals from config.utilities.missing(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/missing.py:79) TESTING: configureMissingSignals from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:79) Check for missing signals, and define MISSING_ if necessary Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGABRT; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGALRM; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGBUS; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGCHLD; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGCONT; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGFPE; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGHUP; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGILL; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGINT; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGKILL; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGPIPE; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGQUIT; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSEGV; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSTOP; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGSYS; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTERM; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTRAP; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGTSTP; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGURG; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.utilities.missing/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int i=SIGUSR1; if (i); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/missing.py:96) TESTING: configureMissingGetdomainnamePrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:96) Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -lstdc++ -ldl ================================================================================ TEST configureMissingSrandPrototype from config.utilities.missing(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/missing.py:121) TESTING: configureMissingSrandPrototype from config.utilities.missing(config/BuildSystem/config/utilities/missing.py:121) Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/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 #include 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; } Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.missing -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/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 #include 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; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.utilities.missing/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.utilities.missing/conftest.o -lstdc++ -ldl child config.utilities.missing 2.399527 ================================================================================ TEST configureFPTrap from config.utilities.FPTrap(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/utilities/FPTrap.py:27) TESTING: configureFPTrap from config.utilities.FPTrap(config/BuildSystem/config/utilities/FPTrap.py:27) Checking the handling of floating point traps Checking for header: sigfpe.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:20: fatal error: sigfpe.h: No such file or directory #include ^compilation terminated.: Checking for header: fpxcp.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:19: fatal error: fpxcp.h: No such file or directory #include ^compilation terminated.: Checking for header: floatingpoint.h Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:27: fatal error: floatingpoint.h: No such file or directory #include ^compilation terminated.: child config.utilities.FPTrap 0.133206 ================================================================================ TEST configureScalarType from PETSc.options.scalarTypes(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/scalarTypes.py:40) TESTING: configureScalarType from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:40) Choose between real and complex numbers Scalar type is real All intermediate test results are stored in /tmp/petsc-1iOaOB/PETSc.options.scalarTypes Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable 'a' [-Wunused-variable] double b = 2.0; int a = isnormal(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isnormal(b); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /usr/bin/ld: /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o: undefined reference to symbol '__fpclassify@@GLIBC_2.17' //usr/lib64/libm.so.6: error adding symbols: DSO missing from command line collect2: error: ld returned 1 exit status Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable 'a' [-Wunused-variable] double b = 2.0; int a = isnan(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isnan(b); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISNAN" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.c:6:21: warning: unused variable 'a' [-Wunused-variable] double b = 2.0; int a = isinf(b); ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { double b = 2.0; int a = isinf(b); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/PETSc.options.scalarTypes/conftest.o -lstdc++ -ldl Defined "HAVE_ISINF" to "1" ================================================================================ TEST configurePrecision from PETSc.options.scalarTypes(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/options/scalarTypes.py:81) TESTING: configurePrecision from PETSc.options.scalarTypes(config/PETSc/options/scalarTypes.py:81) Set the default real number precision for PETSc objects Checking C compiler works with __float128 Checking for functions [logq] in library ['quadmath'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:22: fatal error: quadmath.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_logq() { __float128 f; logq(f);; } int main() { _check_logq();; return 0; } Compile failed inside link Defined "USE_REAL_DOUBLE" to "1" Defined make macro "PETSC_SCALAR_SIZE" to "64" Precision is double child PETSc.options.scalarTypes 1.299408 ================================================================================ TEST configureMkdir from config.programs(/gpfs/alpine/csc314/scratch/adams/petsc/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 /sw/sources/lsf-tools/2.0/summit/bin/mkdir...not found Checking for program /sw/summit/xalt/1.2.0/bin/mkdir...not found Checking for program /sw/summit/forge/20.0.1/bin/mkdir...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mkdir...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/mkdir...not found Checking for program /sw/summit/gcc/6.4.0/bin/mkdir...not found Checking for program /sw/summit/cuda/10.1.243/bin/mkdir...not found Checking for program /usr/bin/mkdir...found Running Executable WITHOUT threads to time it out Executing: /usr/bin/mkdir -p .conftest/tmp Adding -p flag to /usr/bin/mkdir -p to automatically create directories Defined make macro "MKDIR" to "/usr/bin/mkdir -p" ================================================================================ TEST configureAutoreconf from config.programs(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/programs.py:44) TESTING: configureAutoreconf from config.programs(config/BuildSystem/config/programs.py:44) Check for autoreconf Checking for program /sw/sources/lsf-tools/2.0/summit/bin/autoreconf...not found Checking for program /sw/summit/xalt/1.2.0/bin/autoreconf...not found Checking for program /sw/summit/forge/20.0.1/bin/autoreconf...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/autoreconf...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/autoreconf...not found Checking for program /sw/summit/gcc/6.4.0/bin/autoreconf...not found Checking for program /sw/summit/cuda/10.1.243/bin/autoreconf...not found Checking for program /usr/bin/autoreconf...found All intermediate test results are stored in /tmp/petsc-1iOaOB/config.programs Running Executable WITHOUT threads to time it out Executing: ['/usr/bin/autoreconf'] autoreconf test successful! Checking for program /sw/sources/lsf-tools/2.0/summit/bin/libtoolize...not found Checking for program /sw/summit/xalt/1.2.0/bin/libtoolize...not found Checking for program /sw/summit/forge/20.0.1/bin/libtoolize...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/libtoolize...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/libtoolize...not found Checking for program /sw/summit/gcc/6.4.0/bin/libtoolize...not found Checking for program /sw/summit/cuda/10.1.243/bin/libtoolize...not found Checking for program /usr/bin/libtoolize...found ================================================================================ TEST configurePrograms from config.programs(/gpfs/alpine/csc314/scratch/adams/petsc/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 /sw/sources/lsf-tools/2.0/summit/bin/sh...not found Checking for program /sw/summit/xalt/1.2.0/bin/sh...not found Checking for program /sw/summit/forge/20.0.1/bin/sh...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/sh...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/sh...not found Checking for program /sw/summit/gcc/6.4.0/bin/sh...not found Checking for program /sw/summit/cuda/10.1.243/bin/sh...not found Checking for program /usr/bin/sh...found Defined make macro "SHELL" to "/usr/bin/sh" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/sed...not found Checking for program /sw/summit/xalt/1.2.0/bin/sed...not found Checking for program /sw/summit/forge/20.0.1/bin/sed...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/sed...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/sed...not found Checking for program /sw/summit/gcc/6.4.0/bin/sed...not found Checking for program /sw/summit/cuda/10.1.243/bin/sed...not found Checking for program /usr/bin/sed...found Defined make macro "SED" to "/usr/bin/sed" Running Executable WITHOUT threads to time it out Executing: /usr/bin/sed -i s/sed/sd/g "/tmp/petsc-1iOaOB/config.programs/sed1" Adding SEDINPLACE cmd: /usr/bin/sed -i Defined make macro "SEDINPLACE" to "/usr/bin/sed -i" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/mv...not found Checking for program /sw/summit/xalt/1.2.0/bin/mv...not found Checking for program /sw/summit/forge/20.0.1/bin/mv...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/mv...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/mv...not found Checking for program /sw/summit/gcc/6.4.0/bin/mv...not found Checking for program /sw/summit/cuda/10.1.243/bin/mv...not found Checking for program /usr/bin/mv...found Defined make macro "MV" to "/usr/bin/mv" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/cp...not found Checking for program /sw/summit/xalt/1.2.0/bin/cp...not found Checking for program /sw/summit/forge/20.0.1/bin/cp...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/cp...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/cp...not found Checking for program /sw/summit/gcc/6.4.0/bin/cp...not found Checking for program /sw/summit/cuda/10.1.243/bin/cp...not found Checking for program /usr/bin/cp...found Defined make macro "CP" to "/usr/bin/cp" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/grep...not found Checking for program /sw/summit/xalt/1.2.0/bin/grep...not found Checking for program /sw/summit/forge/20.0.1/bin/grep...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/grep...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/grep...not found Checking for program /sw/summit/gcc/6.4.0/bin/grep...not found Checking for program /sw/summit/cuda/10.1.243/bin/grep...not found Checking for program /usr/bin/grep...found Defined make macro "GREP" to "/usr/bin/grep" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/rm...not found Checking for program /sw/summit/xalt/1.2.0/bin/rm...not found Checking for program /sw/summit/forge/20.0.1/bin/rm...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/rm...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/rm...not found Checking for program /sw/summit/gcc/6.4.0/bin/rm...not found Checking for program /sw/summit/cuda/10.1.243/bin/rm...not found Checking for program /usr/bin/rm...found Defined make macro "RM" to "/usr/bin/rm -f" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/diff...not found Checking for program /sw/summit/xalt/1.2.0/bin/diff...not found Checking for program /sw/summit/forge/20.0.1/bin/diff...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/diff...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/diff...not found Checking for program /sw/summit/gcc/6.4.0/bin/diff...not found Checking for program /sw/summit/cuda/10.1.243/bin/diff...not found Checking for program /usr/bin/diff...found Running Executable WITHOUT threads to time it out Executing: "/usr/bin/diff" -w "/tmp/petsc-1iOaOB/config.programs/diff1" "/tmp/petsc-1iOaOB/config.programs/diff2" Defined make macro "DIFF" to "/usr/bin/diff -w" Checking for program /usr/ucb/ps...not found Checking for program /usr/usb/ps...not found Checking for program /gpfs/alpine/scratch/adams/csc314/petsc/lib/petsc/bin/win32fe/ps...not found Unable to find programs ['ps'] providing listing of each search directory to help debug Path provided in Python program Warning accessing /usr/ucb gives errors: [Errno 2] No such file or directory: '/usr/ucb' Warning accessing /usr/usb gives errors: [Errno 2] No such file or directory: '/usr/usb' Path provided by --with-executables-search-path ['win32fe.exe', 'win32feutils.dll'] Defined make macro "PYTHON" to "/usr/bin/python" Checking for program /sw/sources/lsf-tools/2.0/summit/bin/m4...not found Checking for program /sw/summit/xalt/1.2.0/bin/m4...not found Checking for program /sw/summit/forge/20.0.1/bin/m4...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/m4...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/m4...not found Checking for program /sw/summit/gcc/6.4.0/bin/m4...not found Checking for program /sw/summit/cuda/10.1.243/bin/m4...not found Checking for program /usr/bin/m4...found Defined make macro "M4" to "/usr/bin/m4" child config.programs 1.921563 ================================================================================ TEST configureMake from config.packages.make(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/make.py:87) TESTING: configureMake from config.packages.make(config/BuildSystem/config/packages/make.py:87) Check Guesses for GNU make Running Executable WITHOUT threads to time it out Executing: gmake --version stdout: GNU Make 3.82 Built for powerpc64le-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. =============================================================================== ***** WARNING: You have an older version of Gnu make, it will work, but may not support all the parallel testing options. You can install the latest Gnu make with your package manager, such as brew or macports, or use the --download-make option to get the latest Gnu make ***** =============================================================================== Checking for program /sw/sources/lsf-tools/2.0/summit/bin/gmake...not found Checking for program /sw/summit/xalt/1.2.0/bin/gmake...not found Checking for program /sw/summit/forge/20.0.1/bin/gmake...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/gmake...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/gmake...not found Checking for program /sw/summit/gcc/6.4.0/bin/gmake...not found Checking for program /sw/summit/cuda/10.1.243/bin/gmake...not found Checking for program /usr/bin/gmake...found Defined make macro "MAKE" to "/usr/bin/gmake" ================================================================================ TEST setupGNUMake from config.packages.make(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/make.py:121) TESTING: setupGNUMake from config.packages.make(config/BuildSystem/config/packages/make.py:121) Setup other GNU make stuff 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/bin/gmake --print-directory" Defined make macro "OMAKE" to "/usr/bin/gmake --no-print-directory" Defined make macro "MAKE_PAR_OUT_FLG" to "" ================================================================================ TEST configureMakeNP from config.packages.make(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/make.py:168) TESTING: configureMakeNP from config.packages.make(config/BuildSystem/config/packages/make.py:168) check no of cores on the build machine [perhaps to do make '-j ncores'] module multiprocessing found 128 cores: using make_np = 59 using user-provided make_np = 16 Defined make macro "MAKE_NP" to "16" Defined make macro "MAKE_TEST_NP" to "49" Defined make macro "MAKE_LOAD" to "166.4" Defined make macro "NPMAX" to "128" child config.packages.make 0.028474 ================================================================================ TEST alternateConfigureLibrary from config.packages.OpenMPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.OpenMPI(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.OpenMPI 0.000883 Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux ================================================================================ TEST alternateConfigureLibrary from config.packages.MPICH(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.MPICH(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.MPICH 0.006370 ================================================================================ TEST checkDependencies from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.MPI(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:617) TESTING: configureLibrary from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:617) ================================================================================== Checking for a functional MPI Checking for library in Compiler specific search MPI: [] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [MPI_Init MPI_Comm_create] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Init(); static void _check_MPI_Init() { MPI_Init(); } char MPI_Comm_create(); static void _check_MPI_Comm_create() { MPI_Comm_create(); } int main() { _check_MPI_Init(); _check_MPI_Comm_create();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Checking for optional headers [] in Compiler specific search MPI: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in [] Found header files [] in [] Checking for headers ['mpi.h'] in Compiler specific search MPI: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['mpi.h'] in [] Checking include with compiler flags var CPPFLAGS [] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['mpi.h'] in [] ================================================================================ TEST checkMPIDistro from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:478) TESTING: checkMPIDistro from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:478) Determine if MPICH_NUMVERSION, OMPI_MAJOR_VERSION or MSMPI_VER exist in mpi.h Used for consistency checking of MPI installation at compile time All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.MPI Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:4:25: error: 'I_MPI_VERSION' undeclared here (not in a function) const char *mpich_ver = I_MPI_VERSION; ^~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include const char *mpich_ver = I_MPI_VERSION; int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:4:17: error: 'I_MPI_NUMVERSION' undeclared here (not in a function) int mpich_ver = I_MPI_NUMVERSION; ^~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = I_MPI_NUMVERSION; int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:4:17: error: 'MVAPICH2_NUMVERSION' undeclared here (not in a function) int mpich_ver = MVAPICH2_NUMVERSION; ^~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = MVAPICH2_NUMVERSION; int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:4:17: error: 'MPICH_NUMVERSION' undeclared here (not in a function) int mpich_ver = MPICH_NUMVERSION; ^~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int mpich_ver = MPICH_NUMVERSION; int main() { ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int ompi_major = OMPI_MAJOR_VERSION; int ompi_minor = OMPI_MINOR_VERSION; int ompi_release = OMPI_RELEASE_VERSION; int main() { ; return 0; } Preprocessing source: #include "confdefs.h" #include "conffix.h" #include int ompi_major = OMPI_MAJOR_VERSION; int ompi_minor = OMPI_MINOR_VERSION; int ompi_release = OMPI_RELEASE_VERSION; Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Defined "HAVE_OMPI_MAJOR_VERSION" to "10" Defined "HAVE_OMPI_MINOR_VERSION" to "03" Defined "HAVE_OMPI_RELEASE_VERSION" to "01" ================================================================================ TEST configureMPI2 from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:253) TESTING: configureMPI2 from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:253) Check for functions added to the interface in MPI-2 Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int flag;if (MPI_Finalized(&flag)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_FINALIZED" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Allreduce(MPI_IN_PLACE,0, 1, MPI_INT, MPI_SUM, MPI_COMM_SELF)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_IN_PLACE" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:94: warning: initialization makes pointer from integer without a cast [-Wint-conversion] int count=2; int blocklens[2]={0,1}; MPI_Aint indices[2]={0,1}; MPI_Datatype old_types[2]={0,1}; MPI_Datatype *newtype = 0; ^ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:94: note: (near initialization for 'old_types[1]') Source: #include "confdefs.h" #include "conffix.h" #include int main() { int count=2; int blocklens[2]={0,1}; MPI_Aint indices[2]={0,1}; MPI_Datatype old_types[2]={0,1}; MPI_Datatype *newtype = 0; if (MPI_Type_create_struct(count, blocklens, indices, old_types, newtype)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Comm_errhandler_fn * p_err_fun = 0; MPI_Errhandler * p_errhandler = 0; if (MPI_Comm_create_errhandler(p_err_fun,p_errhandler)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Comm_set_errhandler(MPI_COMM_WORLD,MPI_ERRORS_RETURN)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { if (MPI_Reduce_local(0, 0, 0, MPI_INT, MPI_SUM));; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_REDUCE_LOCAL" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { char version[MPI_MAX_LIBRARY_VERSION_STRING];int verlen;if (MPI_Get_library_version(version,&verlen)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_GET_LIBRARY_VERSION" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { int base[100]; MPI_Win win; if (MPI_Win_create(base,100,4,MPI_INFO_NULL,MPI_COMM_WORLD,&win)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_WIN_CREATE" to "1" Defined "HAVE_MPI_ONE_SIDED" to "1" ================================================================================ TEST configureMPI3 from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:298) TESTING: configureMPI3 from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:298) Check for functions added to the interface in MPI-3 Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Comm scomm; MPI_Aint size=128; int disp_unit=8,*baseptr; MPI_Win win; if (MPI_Comm_split_type(MPI_COMM_WORLD, MPI_COMM_TYPE_SHARED, 0, MPI_INFO_NULL, &scomm)); if (MPI_Win_allocate_shared(size,disp_unit,MPI_INFO_NULL,MPI_COMM_WORLD,&baseptr,&win)); if (MPI_Win_shared_query(win,0,&size,&disp_unit,&baseptr)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_PROCESS_SHARED_MEMORY" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:7:24: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (MPI_Iscatter(&send,1,MPI_INT,&recv,1,MPI_INT,0,MPI_COMM_WORLD,&req)); ^~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:8:25: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the 'if' if (MPI_Iscatterv(&send,counts,displs,MPI_INT,&recv,1,MPI_INT,0,MPI_COMM_WORLD,&req)); ^~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int send=0,recv,counts[2]={1,1},displs[2]={1,2}; MPI_Request req; if (MPI_Iscatter(&send,1,MPI_INT,&recv,1,MPI_INT,0,MPI_COMM_WORLD,&req)); if (MPI_Iscatterv(&send,counts,displs,MPI_INT,&recv,1,MPI_INT,0,MPI_COMM_WORLD,&req)); if (MPI_Igather(&send,1,MPI_INT,&recv,1,MPI_INT,0,MPI_COMM_WORLD,&req)); if (MPI_Igatherv(&send,1,MPI_INT,&recv,counts,displs,MPI_INT,0,MPI_COMM_WORLD,&req)); if (MPI_Iallgather(&send,1,MPI_INT,&recv,1,MPI_INT,MPI_COMM_WORLD,&req)); if (MPI_Iallgatherv(&send,1,MPI_INT,&recv,counts,displs,MPI_INT,MPI_COMM_WORLD,&req)); if (MPI_Ialltoall(&send,1,MPI_INT,&recv,1,MPI_INT,MPI_COMM_WORLD,&req)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_NONBLOCKING_COLLECTIVES" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Comm distcomm; MPI_Request req; if (MPI_Dist_graph_create_adjacent(MPI_COMM_WORLD,0,0,MPI_WEIGHTS_EMPTY,0,0,MPI_WEIGHTS_EMPTY,MPI_INFO_NULL,0,&distcomm)); if (MPI_Neighbor_alltoallv(0,0,0,MPI_INT,0,0,0,MPI_INT,distcomm)); if (MPI_Ineighbor_alltoallv(0,0,0,MPI_INT,0,0,0,MPI_INT,distcomm,&req)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_NEIGHBORHOOD_COLLECTIVES" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #if defined(MPIX_CUDA_AWARE_SUPPORT) && MPIX_CUDA_AWARE_SUPPORT #else #error This OpenMPI is not CUDA-aware #endif int main() { ; return 0; } Defined "HAVE_MPI_GPU_AWARE" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:30: warning: 'win' is used uninitialized in this function [-Wuninitialized] int ptr[1]; MPI_Win win; if (MPI_Get_accumulate(ptr,1,MPI_INT,ptr,1,MPI_INT,0,0,1,MPI_INT,MPI_SUM,win)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int ptr[1]; MPI_Win win; if (MPI_Get_accumulate(ptr,1,MPI_INT,ptr,1,MPI_INT,0,0,1,MPI_INT,MPI_SUM,win)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_GET_ACCUMULATE" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:47: warning: 'win' is used uninitialized in this function [-Wuninitialized] int ptr[1]; MPI_Win win; MPI_Request req; if (MPI_Rget(ptr,1,MPI_INT,0,1,1,MPI_INT,win,&req)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int ptr[1]; MPI_Win win; MPI_Request req; if (MPI_Rget(ptr,1,MPI_INT,0,1,1,MPI_INT,win,&req)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_RGET" to "1" ================================================================================ TEST configureMPIEXEC from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:175) TESTING: configureMPIEXEC from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:175) Checking for location of mpiexec Checking for program /sw/sources/lsf-tools/2.0/summit/bin/jsrun...not found Checking for program /sw/summit/xalt/1.2.0/bin/jsrun...found Defined make macro "MPIEXEC" to "jsrun -g1" Running Executable with threads to time it out at 60 Executing: jsrun -g1 -n 1 printenv Unable to run jsrun -g1 with option "-n 1 printenv" This could be ok, some MPI implementations such as SGI produce a non-zero status with non-MPI programs Error: It is only possible to use js commands within a job allocation unless CSM is running 04-19-2020 17:59:22:327 49336 main: Error initializing RM connection. Exiting. Defined make macro "MPIEXEC" to "jsrun -g1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Init(0,0); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.packages.MPI/conftest to see if it can be run Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest Running Executable with threads to time it out at 60 Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest ERROR while running executable: Could not execute "['jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest']": Error: It is only possible to use js commands within a job allocation unless CSM is running 04-19-2020 17:59:23:183 49518 main: Error initializing RM connection. Exiting. ================================================================================ TEST configureMPITypes from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:345) TESTING: configureMPITypes from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:345) Checking for MPI Datatype handles Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int size; int ierr; MPI_Init(0,0); ierr = MPI_Type_size(MPI_LONG_DOUBLE, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int size; int ierr; MPI_Init(0,0); ierr = MPI_Type_size(MPI_LONG_DOUBLE, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.packages.MPI/conftest to see if it can be run Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest Running Executable with threads to time it out at 60 Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest ERROR while running executable: Could not execute "['jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest']": Error: It is only possible to use js commands within a job allocation unless CSM is running 04-19-2020 17:59:24:240 49748 main: Error initializing RM connection. Exiting. Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int size; int ierr; MPI_Init(0,0); ierr = MPI_Type_size(MPI_INT64_T, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int size; int ierr; MPI_Init(0,0); ierr = MPI_Type_size(MPI_INT64_T, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.packages.MPI/conftest to see if it can be run Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest Running Executable with threads to time it out at 60 Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest ERROR while running executable: Could not execute "['jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest']": Error: It is only possible to use js commands within a job allocation unless CSM is running 04-19-2020 17:59:25:255 50187 main: Error initializing RM connection. Exiting. Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int size; int ierr; MPI_Init(0,0); ierr = MPI_Type_size(MPI_C_DOUBLE_COMPLEX, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int size; int ierr; MPI_Init(0,0); ierr = MPI_Type_size(MPI_C_DOUBLE_COMPLEX, &size); if(ierr || (size == 0)) exit(1); MPI_Finalize(); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.packages.MPI/conftest to see if it can be run Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest Running Executable with threads to time it out at 60 Executing: jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest ERROR while running executable: Could not execute "['jsrun -g1 -n 1 /tmp/petsc-1iOaOB/config.packages.MPI/conftest']": Error: It is only possible to use js commands within a job allocation unless CSM is running 04-19-2020 17:59:26:260 50478 main: Error initializing RM connection. Exiting. ================================================================================ TEST SGIMPICheck from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:406) TESTING: SGIMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:406) Returns true if SGI MPI is used Checking for functions [MPI_SGI_barrier] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_SGI_barrier(); static void _check_MPI_SGI_barrier() { MPI_SGI_barrier(); } int main() { _check_MPI_SGI_barrier();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_MPI_SGI_barrier': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `MPI_SGI_barrier' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status SGI MPI test failure ================================================================================ TEST CxxMPICheck from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:416) TESTING: CxxMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:416) Make sure C++ can compile and link Checking for header mpi.h Checking for C++ MPI_Finalize() Checking for functions [MPI_Finalize] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.cc Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.cc: In function 'void _check_MPI_Finalize()': /tmp/petsc-1iOaOB/config.libraries/conftest.cc:5:41: warning: variable 'ierr' set but not used [-Wunused-but-set-variable] static void _check_MPI_Finalize() { int ierr; ^~~~ Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_MPI_Finalize() { int ierr; ierr = MPI_Finalize();; } int main() { _check_MPI_Finalize();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl ================================================================================ TEST FortranMPICheck from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:432) TESTING: FortranMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:432) Make sure fortran include [mpif.h] and library symbols are found ================================================================================ TEST configureIO from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:454) TESTING: configureIO from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:454) Check for the functions in MPI/IO - Define HAVE_MPIIO if they are present - Some older MPI 1 implementations are missing these Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:7:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (MPI_Type_get_extent(MPI_INT, &lb, &extent)); ^~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:9:50: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the 'if' MPI_File fh; ^~~~~~~~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:12:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); ^~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:14:50: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the 'if' if (MPI_File_read_all(fh, buf, 1, MPI_INT, &status)); ^~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:18:1: warning: this 'if' clause does not guard... [-Wmisleading-indentation] if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); ^~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:20:50: note: ...this statement, but the latter is misleadingly indented as if it is guarded by the 'if' if (MPI_File_open(MPI_COMM_SELF, "", 0, info, &fh)); ^~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:12:5: warning: 'buf' is used uninitialized in this function [-Wuninitialized] if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:18:5: warning: 'disp' is used uninitialized in this function [-Wuninitialized] if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:18:5: warning: 'info' is used uninitialized in this function [-Wuninitialized] Source: #include "confdefs.h" #include "conffix.h" #include int main() { MPI_Aint lb, extent; if (MPI_Type_get_extent(MPI_INT, &lb, &extent)); MPI_File fh; void *buf; MPI_Status status; if (MPI_File_write_all(fh, buf, 1, MPI_INT, &status)); if (MPI_File_read_all(fh, buf, 1, MPI_INT, &status)); MPI_Offset disp; MPI_Info info; if (MPI_File_set_view(fh, disp, MPI_INT, MPI_INT, "", info)); if (MPI_File_open(MPI_COMM_SELF, "", 0, info, &fh)); if (MPI_File_close(&fh)); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -lstdc++ -ldl Defined "HAVE_MPIIO" to "1" ================================================================================ TEST findMPIInc from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:558) TESTING: findMPIInc from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:558) Find MPI include paths from "mpicc -show" and use with CUDAC_FLAGS Running Executable WITHOUT threads to time it out Executing: mpicc -show stdout: gcc -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm compilers: Checking arg gcc compilers: Checking arg -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include compilers: Found include option: -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -O2 -g -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.setCompilers/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added CUDA compiler flag -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include compilers: Checking arg -pthread compilers: Checking arg -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib compilers: Checking arg -lmpiprofilesupport compilers: Checking arg -lmpi_ibm ================================================================================ TEST PetscArchMPICheck from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MPI.py:592) TESTING: PetscArchMPICheck from config.packages.MPI(config/BuildSystem/config/packages/MPI.py:592) Checking for functions [MPI_Type_get_envelope MPI_Type_dup MPI_Init_thread MPI_Iallreduce MPI_Ibarrier MPI_Finalized MPI_Exscan MPI_Reduce_scatter MPI_Reduce_scatter_block] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPI_Type_get_envelope(); static void _check_MPI_Type_get_envelope() { MPI_Type_get_envelope(); } char MPI_Type_dup(); static void _check_MPI_Type_dup() { MPI_Type_dup(); } char MPI_Init_thread(); static void _check_MPI_Init_thread() { MPI_Init_thread(); } char MPI_Iallreduce(); static void _check_MPI_Iallreduce() { MPI_Iallreduce(); } char MPI_Ibarrier(); static void _check_MPI_Ibarrier() { MPI_Ibarrier(); } char MPI_Finalized(); static void _check_MPI_Finalized() { MPI_Finalized(); } char MPI_Exscan(); static void _check_MPI_Exscan() { MPI_Exscan(); } char MPI_Reduce_scatter(); static void _check_MPI_Reduce_scatter() { MPI_Reduce_scatter(); } char MPI_Reduce_scatter_block(); static void _check_MPI_Reduce_scatter_block() { MPI_Reduce_scatter_block(); } int main() { _check_MPI_Type_get_envelope(); _check_MPI_Type_dup(); _check_MPI_Init_thread(); _check_MPI_Iallreduce(); _check_MPI_Ibarrier(); _check_MPI_Finalized(); _check_MPI_Exscan(); _check_MPI_Reduce_scatter(); _check_MPI_Reduce_scatter_block();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Defined "HAVE_MPI_TYPE_GET_ENVELOPE" to "1" Defined "HAVE_MPI_TYPE_DUP" to "1" Defined "HAVE_MPI_INIT_THREAD" to "1" Defined "HAVE_MPI_IALLREDUCE" to "1" Defined "HAVE_MPI_IBARRIER" to "1" Defined "HAVE_MPI_FINALIZED" to "1" Defined "HAVE_MPI_EXSCAN" to "1" Defined "HAVE_MPI_REDUCE_SCATTER" to "1" Defined "HAVE_MPI_REDUCE_SCATTER_BLOCK" to "1" Checking for functions [MPIX_Iallreduce] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPIX_Iallreduce(); static void _check_MPIX_Iallreduce() { MPIX_Iallreduce(); } int main() { _check_MPIX_Iallreduce();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_MPIX_Iallreduce': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `MPIX_Iallreduce' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status Checking for functions [MPIX_Ibarrier] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char MPIX_Ibarrier(); static void _check_MPIX_Ibarrier() { MPIX_Ibarrier(); } int main() { _check_MPIX_Ibarrier();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_MPIX_Ibarrier': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `MPIX_Ibarrier' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:5: warning: unused variable 'combiner' [-Wunused-variable] int combiner = MPI_COMBINER_DUP;; ^~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int combiner = MPI_COMBINER_DUP;; return 0; } Defined "HAVE_MPI_COMBINER_DUP" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:5: warning: unused variable 'combiner' [-Wunused-variable] int combiner = MPI_COMBINER_CONTIGUOUS;; ^~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int combiner = MPI_COMBINER_CONTIGUOUS;; return 0; } Defined "HAVE_MPI_COMBINER_CONTIGUOUS" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.MPI/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c:6:5: warning: unused variable 'combiner' [-Wunused-variable] int combiner = MPI_COMBINER_NAMED;; ^~~~~~~~ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int combiner = MPI_COMBINER_NAMED;; return 0; } Defined "HAVE_MPI_COMBINER_NAMED" to "1" ================================================================================ TEST checkVersion from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.MPI(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "mpi.h" ;petscpkgver(MPI_VERSION); Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI /tmp/petsc-1iOaOB/config.packages.MPI/conftest.c For mpi need 2 <= 3 <= ================================================================================ TEST checkSharedLibrary from config.packages.MPI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.MPI(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.MPI 14.150812 ================================================================================ TEST alternateConfigureLibrary from config.packages.zstd(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.zstd(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.zstd 0.001165 ================================================================================ TEST alternateConfigureLibrary from config.packages.yaml(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.yaml(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.yaml 0.000967 ================================================================================ TEST configureLibrary from config.packages.valgrind(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:868) TESTING: configureLibrary from config.packages.valgrind(config/BuildSystem/config/package.py:868) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional valgrind Not checking for library in Compiler specific search VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for optional headers [] in Compiler specific search VALGRIND: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in [] Found header files [] in [] Checking for headers ['valgrind/valgrind.h'] in Compiler specific search VALGRIND: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['valgrind/valgrind.h'] in [] Checking include with compiler flags var CPPFLAGS [] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^compilation terminated.: Not checking for library in Package specific search directory VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for optional headers [] in Package specific search directory VALGRIND: ['/usr/local/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/usr/local/include'] Found header files [] in ['/usr/local/include'] Checking for headers ['valgrind/valgrind.h'] in Package specific search directory VALGRIND: ['/usr/local/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['valgrind/valgrind.h'] in ['/usr/local/include'] Checking include with compiler flags var CPPFLAGS ['/usr/local/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/usr/local/include /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^compilation terminated.: Not checking for library in Package specific search directory VALGRIND: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for optional headers [] in Package specific search directory VALGRIND: ['/usr/local/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/usr/local/include'] Found header files [] in ['/usr/local/include'] Checking for headers ['valgrind/valgrind.h'] in Package specific search directory VALGRIND: ['/usr/local/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['valgrind/valgrind.h'] in ['/usr/local/include'] Checking include with compiler flags var CPPFLAGS ['/usr/local/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/usr/local/include /tmp/petsc-1iOaOB/config.headers/conftest.c Possible ERROR while running preprocessor: exit code 1 stdout: # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "" # 1 "" # 1 "/usr/include/stdc-predef.h" 1 3 4 # 1 "" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conftest.c" # 1 "/tmp/petsc-1iOaOB/config.headers/confdefs.h" 1 # 2 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 # 1 "/tmp/petsc-1iOaOB/config.headers/conffix.h" 1 # 3 "/tmp/petsc-1iOaOB/config.headers/conftest.c" 2 stderr: /tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include Preprocess stderr before filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^ compilation terminated. : Preprocess stderr after filtering:/tmp/petsc-1iOaOB/config.headers/conftest.c:3:31: fatal error: valgrind/valgrind.h: No such file or directory #include ^compilation terminated.: VALGRIND: SearchDir DirPath not found.. skipping: /opt/local Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux =============================================================================== It appears you do not have valgrind installed on your system. We HIGHLY recommend you install it from www.valgrind.org Or install valgrind-devel or equivalent using your package manager. Then rerun ./configure =============================================================================== child config.packages.valgrind 0.134677 ================================================================================ TEST alternateConfigureLibrary from config.packages.ssl(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ssl(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ssl 0.001129 ================================================================================ TEST alternateConfigureLibrary from config.packages.sprng(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.sprng(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.sprng 0.000952 Not a clone of PETSc or no Fortran compiler or fortran-bindings disabled, don't need Sowing child config.packages.sowing 0.000288 ================================================================================ TEST alternateConfigureLibrary from config.packages.revolve(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.revolve(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.revolve 0.000974 ================================================================================ TEST alternateConfigureLibrary from config.packages.radau5(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.radau5(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.radau5 0.000952 ================================================================================ TEST alternateConfigureLibrary from config.packages.pami(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.pami(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.pami 0.000810 ================================================================================ TEST alternateConfigureLibrary from config.packages.opengles(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.opengles(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.opengles 0.000797 ================================================================================ TEST alternateConfigureLibrary from config.packages.opencl(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.opencl(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.opencl 0.000817 ================================================================================ TEST alternateConfigureLibrary from config.packages.muparser(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.muparser(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.muparser 0.000932 Defined "PYTHON_EXE" to ""/usr/bin/python"" Running Executable WITHOUT threads to time it out Executing: /usr/bin/python -c "import Cython" Running Executable WITHOUT threads to time it out Executing: /usr/bin/python -c "import numpy" child config.packages.python 0.030743 ================================================================================ TEST alternateConfigureLibrary from config.packages.petsc4py(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/petsc4py.py:97) TESTING: alternateConfigureLibrary from config.packages.petsc4py(config/BuildSystem/config/packages/petsc4py.py:97) Defined make rule "petsc4py-build" with dependencies "" and code [] Defined make rule "petsc4py-install" with dependencies "" and code [] child config.packages.petsc4py 0.001477 ================================================================================ TEST alternateConfigureLibrary from config.packages.mpi4py(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/mpi4py.py:74) TESTING: alternateConfigureLibrary from config.packages.mpi4py(config/BuildSystem/config/packages/mpi4py.py:74) Defined make rule "mpi4py-build" with dependencies "" and code [] Defined make rule "mpi4py-install" with dependencies "" and code [] child config.packages.mpi4py 0.001362 ================================================================================ TEST alternateConfigureLibrary from config.packages.mpe(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.mpe(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.mpe 0.000966 ================================================================================ TEST alternateConfigureLibrary from config.packages.memkind(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.memkind(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.memkind 0.000818 ================================================================================ TEST alternateConfigureLibrary from config.packages.libmesh(/gpfs/alpine/csc314/scratch/adams/petsc/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 [] child config.packages.libmesh 0.001260 ================================================================================ TEST alternateConfigureLibrary from config.packages.moose(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.moose(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.moose 0.000848 ================================================================================ TEST alternateConfigureLibrary from config.packages.libjpeg(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.libjpeg(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.libjpeg 0.000949 ================================================================================ TEST alternateConfigureLibrary from config.packages.libceed(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.libceed(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.libceed 0.000935 Checking for program /sw/sources/lsf-tools/2.0/summit/bin/lgrind...not found Checking for program /sw/summit/xalt/1.2.0/bin/lgrind...not found Checking for program /sw/summit/forge/20.0.1/bin/lgrind...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/lgrind...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/lgrind...not found Checking for program /sw/summit/gcc/6.4.0/bin/lgrind...not found Checking for program /sw/summit/cuda/10.1.243/bin/lgrind...not found Checking for program /usr/bin/lgrind...not found Checking for program /usr/sbin/lgrind...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43/bin/lgrind...not found Checking for program /sw/sources/hpss/bin/lgrind...not found Checking for program /opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/etc/lgrind...not found Checking for program /opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/bin/lgrind...not found Checking for program /opt/ibm/csm/bin/lgrind...not found Checking for program /usr/local/bin/lgrind...not found Checking for program /usr/local/sbin/lgrind...not found Checking for program /opt/ibm/flightlog/bin/lgrind...not found Checking for program /opt/ibutils/bin/lgrind...not found Checking for program /opt/ibm/spectrum_mpi/jsm_pmix/bin/lgrind...not found Checking for program /opt/puppetlabs/bin/lgrind...not found Checking for program /usr/lpp/mmfs/bin/lgrind...not found Checking for program /gpfs/alpine/scratch/adams/csc314/petsc/lib/petsc/bin/win32fe/lgrind...not found Unable to find programs ['lgrind'] providing listing of each search directory to help debug Path provided in Python program Path provided by default path ['bsub', 'bjob', 'showusage'] ['mpirun', 'ibrun', 'ibrun.symm', 'aprun', 'jsrun', 'ld', 'xalt_helper_functions.sh'] ['ddt-debugger-mps', 'ddt', 'ddt-debugger', 'allinea-client', 'ddt-mpirun', 'forge-probe', 'forge', 'make-profiler-libraries', 'ddt-debugger-ll', 'map', 'ddt-client'] ['shmemrun', 'profile2mat.pl', 'oshrun', 'oshmem_info', 'orterun', 'orted', 'orte-server', 'orte-info', 'orte-clean', 'ompi_info', 'ompi-server', 'ompi-clean', 'mpitool', 'mpirun', 'mpijob', 'mpiexec', 'jumpshot', 'get_nl_setting', 'efix', 'alias.pl', 'aggregate_profile.pl', 'stock', 'shmemfort', 'shmemcxx', 'shmemcc', 'shmemc++', 'shmemCC', 'oshfort', 'oshcxx', 'oshcc', 'oshc++', 'oshCC', 'ortecc', 'opal_wrapper', 'mpixlf', 'mpixlc', 'mpixlC', 'mpipgifort', 'mpipgicc', 'mpipgic++', 'mpifort', 'mpif90', 'mpif77', 'mpicxx', 'mpicc', 'mpic++', 'mpiCC', 'mpip-jsrun'] ['ccmake', 'cmake', 'ctest', 'cpack'] ['g++', 'c++', 'powerpc64le-none-linux-gnu-g++', 'powerpc64le-none-linux-gnu-c++', 'gfortran', 'powerpc64le-none-linux-gnu-gfortran', 'gcj', 'powerpc64le-none-linux-gnu-gcj', 'jcf-dump', 'gcov', 'gcov-tool', 'gcov-dump', 'cpp', 'gcc', 'powerpc64le-none-linux-gnu-gcc-6.4.0', 'gcc-ar', 'powerpc64le-none-linux-gnu-gcc', 'powerpc64le-none-linux-gnu-gcc-ar', 'gcc-nm', 'powerpc64le-none-linux-gnu-gcc-nm', 'gcc-ranlib', 'powerpc64le-none-linux-gnu-gcc-ranlib', 'jv-convert', 'gij', 'grmic', 'grmiregistry', 'gcj-dbtool', 'gappletviewer', 'gjarsigner', 'gkeytool', 'gjar', 'gcjh', 'gjavah', 'gnative2ascii', 'gorbd', 'grmid', 'gserialver', 'gtnameserv', 'gc-analyze', 'rebuild-gcj-db', 'aot-compile'] ['cuobjdump', 'cuda-gdb', 'cuda-gdbserver', 'gpu-library-advisor', 'cuda-memcheck', 'nsight', 'nsight_ee_plugins_manage.sh', 'nv-nsight-cu-cli', 'bin2c', 'crt', 'cudafe++', 'fatbinary', 'nvcc', 'nvcc.profile', 'nvlink', 'ptxas', 'nvdisasm', 'nvprof', 'nvprune', 'computeprof', 'nvvp', 'cuda-install-samples-10.1.sh'] ['sview', 'strigger', 'sstat', 'sshare', 'srun', 'sreport', 'squeue', 'sprio', 'smap', 'sinfo', 'sgather', 'sdiag', 'scontrol', 'scancel', 'sbcast', 'sbatch', 'sattach', 'salloc', 'sacctmgr', 'sacct', 'qsub', 'tracejob', 'qterm', 'qstop', 'qstat', 'qstart', 'qsig', 'qselect', 'qrun', 'qrls', 'qrerun', 'qorder', 'qnodes', 'qmsg', 'qmove', 'qmgr', 'qhold', 'qgpureset', 'qgpumode', 'qenable', 'qdisable', 'qdel', 'qchkpt', 'qalter', 'printtracking', 'printserverdb', 'printjob', 'pbsnodes', 'pbsdsh', 'pbs_track', 'nqs2pbs', 'hostn', 'chk_tree', 'jobsub', 'jobstat', 'ctags', 'diffstat', 'rpmsign', 'swig', 'ccache-swig', 'ocs', 'cscope-indexer', 'cscope', 'doxygen', 'unwrapdiff', 'splitdiff', 'rediff', 'recountdiff', 'lsdiff', 'interdiff', 'grepdiff', 'flipdiff', 'fixcvsdiff', 'filterdiff', 'espdiff', 'editdiff', 'dehtmldiff', 'combinediff', 'yacc', 'byacc', 'indent', 'rlog', 'rcsmerge', 'rcsfreeze', 'rcsdiff', 'rcsclean', 'rcs', 'merge', 'ident', 'co', 'ci', 'svnversion', 'svnsync', 'svnserve', 'svnrdump', 'svnlook', 'svndumpfilter', 'svnadmin', 'svn', 'intltoolize', 'intltool-update', 'intltool-prepare', 'intltool-merge', 'intltool-extract', 'gettextize', 'autopoint', 'stap-report', 'stapsh', 'staprun', 'stap-merge', 'stap-prep', 'stap', 'screen', 'rhn_register', 'whiptail', 'subscription-manager', 'rhsmcertd', 'rhsm-debug', 'rct', 'consolehelper', 'pyinotify', 'easy_install-2.7', 'easy_install', 'snmpwalk', 'snmpvacm', 'snmpusm', 'snmptrap', 'snmptranslate', 'snmptls', 'snmptest', 'snmptable', 'snmpstatus', 'snmpset', 'snmpnetstat', 'snmpinform', 'snmpgetnext', 'snmpget', 'snmpdf', 'snmpdelta', 'snmpbulkwalk', 'snmpbulkget', 'encode_keychange', 'chardetect', 'atopsar', 'atopd', 'atopconvert', 'atop', 'abrt-dump-oops', 'abrt-action-save-kernel-data', 'abrt-action-analyze-oops', 'abrt-action-trim-files', 'abrt-action-perform-ccpp-analysis', 'abrt-action-list-dsos', 'abrt-action-install-debuginfo', 'abrt-action-generate-core-backtrace', 'abrt-action-generate-backtrace', 'abrt-action-analyze-vulnerability', 'abrt-action-analyze-core', 'abrt-action-analyze-ccpp-local', 'abrt-action-analyze-c', 'abrt-action-analyze-backtrace', 'abrt-watch-log', 'abrt-handle-upload', 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'pkaction', 'unix2dos', 'groff', 'shred', 'itrace', 'xmlcatalog', 'texhash', 'systemd-machine-id-setup', 'flint', 'ibdiagnet_csv2xml.py', 'iecset', 'hwloc-annotate', 'eps2eps', 'autoscan', 'grotty', 'colrm', 'bash', 'glib-gettextize', 'yes', 'lz4', 'epstopdf', 'gpgparsemail', 'spax', 'pr', 'kill', 'bzcmp', 'mlxdump_ext', 'ypmatch', 'ibv_ud_pingpong', 'aria_ftdump', 'w', 'logname', 'ksh93', 'od', 'xmodmap', 'gpic', 'pmlogsize', 'p11-kit', 'systemd-nspawn', 'm17n-conv', 'bzip2', 'timedatectl', 'gresource', 'rping', 'infocmp', 'unmunge', 'nl', 'users', 'minit', 'idlj', 'xstdcmap', 'msgmerge', 'a2p', 'csharp', 'mft_uninstall.sh', 'testgdbm', 'gdk-pixbuf-thumbnailer', 'hsc2hs', 'lpq', 'glib-genmarshal', 'tailf', 'quota', 'hca_self_test.ofed', 'id', 'stty', 'update-ca-trust', 'mlxconfig', 'setreg', 'xzfgrep', 'mv', 'fipscheck', 'ftp-rfc', 'disco', 'sqlsharp', 'join', 'xsetpointer', 'ppc', 'rlogin-cwd', 'vimdiff', 'lchfn', 'tr', 'chacl', 'echo', 'netstat', 'texlinks', 'pkla-check-authorization', 'display', 'strip', 'xdg-settings', 'rpdcp', 'mstdump', 'mkpasswd', 'ping6', 'mlxphyburn', 'pydoc', 'ps2pdf12', 'jstat', 'gpgv', 'eu-strings', 'pphs', 'eu-elfcmp', 'jobs', 'zfgrep', 'systemd-delta', 'update-gtk-immodules', 'glib-compile-resources', 'gsettings-data-convert', 'pic', 'mlx_fpga', 'dotlockfile', 'gobject-query', 'redhat_lsb_init', 'Xorg', 'import', 'sftp', 'emacsclient', 'raw_ethernet_lat', 'zless', 'aria_pack', 'msgexec', 'false', 'crlutil', 'nvidia-cuda-mps-control', 'oclock', 'dnsdomainname', 'javac', 'pcp', 'mail', 'fwtrace', 'xdpr', 'awk', 'tclsh8.5', 'gprof', 'xkibitz', 'my_print_defaults', 'rcopy', 'passmass', 'pod2latex', 'freetype-config', 'bzip2recover', 'bdftruncate', 'x0vncserver', 'yum', 'abs2rel', 'geoiplookup', 'pcp2csv', 'build-classpath-directory', 'otfview', 'znew', 'mstmread', 'aplay', 'gvim', 'nvvs', 'ldapmodify', 'nv-hostengine', 'pl2pm', 'javap', 'pango-view', 'ibsim', 'sss_ssh_authorizedkeys', 'hostid', 'create-jar-links', 'mcra', 'zdiff', 'pathchk'] ['trqauthd', 'rhnsd', 'rhn_check', 'spacewalk-channel', 'rhnreg_ks', 'rhn_register', 'rhn-channel', 'rhn-profile-sync', 'subscription-manager', 'userhelper', 'pifconfig', 'pethtool', 'virt-what', 'atopacctd', 'abrt-install-ccpp-hook', 'abrt-dbus', 'abrt-configuration', 'abrtd', 'abrt-server', 'abrt-auto-reporting', 'vgcfgrestore', 'selabel_digest', 'resize2fs', 'luserdel', 'bootlist', 'fdisk', 'thin_trim', 'e4defrag', 'tracepath', 'pwhistory_helper', 'mkdumprd', 'mke2fs', 'mkfs.ext2', 'mkfs.ext3', 'mkfs.ext4', 'badblocks', 'mii-diag', 'lpc', 'lgroupmod', 'rpc.statd', 'lsdevinfo', 'ibfindnodesusing.pl', 'ifup', 'alsa-info', 'ibdiscover.pl', 'load_policy', 'rtcwake', 'thin_repair', 'usermod', 'xfs_freeze', 'lvs', 'xfs_mdrestore', 'plipconfig', 'groupmod', 'fsck.xfs', 'lsvpd', 'unix_update', 'readprofile', 'vgreduce', 'losetup', 'sshd-keygen', 'update-alternatives', 'rtas_event_decode', 'selabel_lookup_best_match', 'cracklib-check', 'ntptime', 'partx', 'agetty', 'pvdisplay', 'vmcore-dmesg', 'show_irq_affinity_hints.sh', 'mlnx_net_rules', 'kexec', 'cracklib-unpacker', 'lsprop', 'thin_dump', 'alternatives', 'vendor_pre_uninstall.sh', 'yppoll', 'swaplabel', 'lvchange', 'blockdev', 'ibdatacounts', 'dracut', 'useradd', 'zdump', 'alsa-info.sh', 'lparstat', 'ctrlaltdel', 'smpdump', 'ss', 'swapoff', 'swapon', 'zic', 'ipmaddr', 'sys-unconfig', 'sldd.sh', 'iconvconfig.ppc64le', 'iconvconfig', 'tcsd', 'ibhosts', 'dmsetup', 'lid', 'chcpu', 'cache_dump', 'ibchecknode', 'ibroute', 'depmod', 'vgremove', 'pseries_platform', 'nvme', 'getpcaps', 'ppp-watch', 'lscfg', 'cache_repair', 'xfs_logprint', 'postlock', 'serv_config', 'dumpe2fs', 'nvram', 'udevadm', 'parted', 'lsmod', 'tc', 'ntpdate', 'sestatus', 'fsck.minix', 'rpcinfo', 'pmc', 'groupmems', 'srp_daemon.sh', 'iptables-restore', 'pwunconv', 'routel', 'postqueue', 'ls-vdev', 'lpasswd', 'sysctl', 'e2freefrag', 'dmstats', 'capsh', 'sendmail', 'xfs_db', 'pam_timestamp_check', 'chpasswd', 'lvdisplay', 'hwstamp_ctl', 'lnewusers', 'zramctl', 'yptest', 'quotacheck', 'ibdatacounters', 'lvcreate', 'mkdict', 'vgmknodes', 'iptables-save', 'fixfiles', 'set_irq_affinity_cpulist.sh', 'lspci', 'xtables-multi', 'blkdeactivate', 'postlog', 'fsck', 'lsslot', 'xfs_quota', 'rdisc', 'update_flash_nv', 'srp_daemon', 'bridge', 'saquery', 'ibswitches', 'addpart', 'smpquery', 'sss_cache', 'clockdiff', 'ntpdc', 'ypset', 'runlevel', 'sssd', 'build-locale-archive', 'ntpd', 'nfsidmap', 'ipmievd', 'atrun', 'postcat', 'odp_stat.sh', 'lvconvert', 'e2fsck', 'fsck.ext2', 'fsck.ext3', 'fsck.ext4', 'rtstat', 'ibprintrt.pl', 'ifconfig', 'era_dump', 'xfs_growfs', 'sminfo', 'lvmsadc', 'ibclearcounters', 'dmfilemapd', 'restorecon', 'thin_ls', 'ldattach', 'grpconv', 'vendor_post_uninstall.sh', 'ntpq', 'nvsetenv', 'era_check', 'connectx_port_config', 'postconf', 'delpart', 'try-from', 'vpdupdate', 'era_restore', 'avcstat', 'munged', 'snmpd', 'mountstats', 'mklost+found', 'lvmsar', 'ls-veth', 'snmptrapd', 'route', 'ibsrpdm', 'ibstat', 'phc2sys', 'lvresize', 'cracklib-packer', 'new-kernel-pkg', 'fsck.nfs', 'irqbalance', 'logrotate', 'xfs_rtcp', 'rpc.rquotad', 'ibcacheedit', 'genhomedircon', 'genl', 'exportfs', 'xfs_bmap', 'grpck', 'alsactl', 'cache_writeback', 'newusers', 'selabel_partial_match', 'makedumpfile', 'show_gids', 'mlnx_affinity', 'ofed_uninstall.sh', 'vgexport', 'lvmdump', 'nslcd', 'pvresize', 'partprobe', 'set_irq_affinity_bynode.sh', 'show_irq_affinity.sh', 'dump_fts', 'errinjct', 'hardlink', 'matchpathcon', 'fdformat', 'vgextend', 'fsfreeze', 'ofpathname', 'pwck', 'dhclient', 'postdrop', 'sendmail.postfix', 'vgcfgbackup', 'sulogin', 'hack-coff', 'lpc.cups', 'xfs_info', 'ypbind', 'nameif', 'nstat', 'mkfs.cramfs', 'sim_server', 'activate_firmware', 'nfsstat', 'opensm', 'gssproxy', 'ibaddr', 'mkfs.xfs', 'groupadd', 'halt', 'osmtest', 'lvmpolld', 'lsmcode', 'pvs', 'lvremove', 'start-statd', 'debugfs', 'setpci', 'selinuxexeccon', 'ibportstate', 'rtmon', 'ibcheckerrors', 'vgimportclone', 'e2label', 'tune2fs', 'rtas_dump', 'postfix', 'lnstat', 'dump_mfts.sh', 'thin_restore', 'check_lft_balance.pl', 'ibidsverify.pl', 'cma_roce_tos', 'selabel_lookup', 'ip6tables-save', 'rmmod', 'cache_metadata_size', 'nsm', 'run_srp_daemon', 'runuser', 'xfs_metadump', 'getcap', 'sefcontext_compile', 'ip', 'iptables', 'glibc_post_upgrade.ppc64le', 'fsadm', 'iblinkinfo.pl', 'ibqueryerrors.pl', 'setfiles', 'sys_ident', 'dhclient-script', 'tracepath6', 'findfs', 'getsebool', 'cbq', 'e2image', 'blkdiscard', 'uuserver', 'ifcfg', 'shutdown', 'smtp-source', 'install-info', 'set_nodedesc.sh', 'xfs_repair', 'rsyslogd', 'rpcdebug', 'lvm', 'mkhomedir_helper', 'pvscan', 'logsave', 'pwconv', 'unsquashfs', 'ntp-keygen', 'e2undo', 'blkmapd', 'vgscan', 'osd_login', 'umount.nfs', 'ibcheckerrs', 'rpc.nfsd', 'iblinkinfo', 'ibtracert', 'cfdisk', 'common_irq_affinity.sh', 'modinfo', 'sasldblistusers2', 'rtpr', 'selinuxconlist', 'wrapper', 'blkid', 'ibclearerrors', 'lvmconf', 'xqmstats', 'vgsplit', 'postsuper', 'thin_check', 'filefrag', 'adduser', 'redhat_lsb_trigger.ppc64le', 'dump_lfts.sh', 'drmgr', 'cache_check', 'crond', 'pvchange', 'vendstat', 'setenforce', 'addgnupghome', 'tcpdmatch', 'reboot', 'vipw', 'rpc.gssd', 'cracklib-format', 'perfquery', 'sln', 'pivot_root', 'create-cracklib-dict', 'quotaon', 'groupdel', 'ptp4l', 'mkfs', 'xfs_estimate', 'dmeventd', 'gss-server', 'usernetctl', 'show_counters', 'xfs_ncheck', 'vgchange', 'grpunconv', 'quotastats', 'iptunnel', 'dkms', 'resizepart', 'sysctl_perf_tuning', 'xfs_mkfile', 'repquota', 'ip6tables-restore', 'lusermod', 'wipefs', 'sshd', 'ifdown', 'cache_restore', 'arp', 'pvremove', 'clock', 'tickadj', 'ldconfig', 'selinuxdefcon', 'lvreduce', 'vigr', 'quot', 'vgdisplay', 'lchage', 'arping', 'ibacm', 'ibcheckportstate', 'smparquery', 'insmod', 'addnote', 'lvmetad', 'ibprintca.pl', 'switch_root', 'hwclock', 'kpartx', 'ifstat', 'sysinfo-snapshot.py', 'setsebool', 'edquota', 'killall5', 'pidof', 'anacron', 'service', 'sfdisk', 'vgimport', 'vgrename', 'sm-notify', 'lvmdiskscan', 'lvscan', 'selinuxenabled', 'nologin', 'atd', 'accessdb', 'ibcheckstate', 'userdel', 'lsvio', 'ibnodes', 'weak-modules', 'quotaoff', 'setquota', 'era_invalidate', 'automount', 'xfs_copy', 'sosreport', 'consoletype', 'phc_ctl', 'safe_finger', 'ppc64_cpu', 'mlnx_eswitch_set', 'uesensor', 'rpc.mountd', 'ls-vscsi', 'ibsysstat', 'modprobe', 'ibstatus', 'lgroupadd', 'vgs', 'rtacct', 'pdata_tools', 'telinit', 'setup_mr_cache.sh', 'poweroff', 'lsof', 'slattach', 'visudo', 'ibcheckportwidth', 'update-pciids', 'nscd', 'update_flash', 'smtp-sink', 'mkswap', 'sushell', 'lvmconfig', 'mktree', 'xfs_admin', 'ctstat', 'lvrename', 'ibmirror', 'pam_tally2', 'chkconfig', 'pam_console_apply', 'xfs_io', 'ib2ib_setup', 'nfsdcltrack', 'mksquashfs', 'umount.nfs4', 'arpd', 'rtas_ibm_get_vpd', 'setcap', 'rtas_dbg', 'chroot', 'ibqueryerrors', 'grubby', 'timemaster', 'ibchecknet', 'installkernel', 'vgmerge', 'rpc.idmapd', 'create-munge-key', 'routef', 'mount.nfs', 'pvmove', 'ip6tables', 'postmulti', 'ibnetdiscover', 'key.dns_resolver', 'request-key', 'alsabat-test.sh', 'genhostid', 'ibswportwatch.pl', 'postmap', 'init', 'ibprintswitch.pl', 'ether-wake', 'ifenslave', 'selinux_restorecon', 'fstrim', 'xfs_fsr', 'packer', 'lgroupdel', 'vgcreate', 'mount.nfs4', 'ethtool', 'fsck.cramfs', 'postalias', 'lvextend', 'vgconvert', 'saslpasswd2', 'netreport', 'mkfs.minix', 'cma_roce_mode', 'ibcheckwidth', 'thin_metadata_size', 'faillock', 'thin_rmap', 'ibcheckport', 'pvck', 'postkick', 'ibrouters', 'pvcreate', 'tcpd', 'vgck', 'rpcbind', 'ping6', 'opal-prd', 'thin_delta', 'mii-tool', 'showmount', 'ibccquery', 'devlink', 'set_irq_affinity.sh', 'ibping', 'nfsiostat', 'mlnx_tune', 'hvcsadmin', 'unix_chkpwd', 'getenforce', 'luseradd', 'set_poweron_time', 'semodule', 'convertquota', 'applygnupgdefaults', 'fuser', 'ibccconfig', 'compat_gid_gen'] ['darshan-mk-log-dirs.pl', 'darshan-gen-cc.pl', 'darshan-gen-cxx.pl', 'darshan-gen-fortran.pl', 'darshan-config'] ['htar', '5.0.2.9', '6.0.0.11', '5.0.2.11', 'hsi', '6.2.0.1', 'TA_Status', 'test_TA'] ['esub', 'esub.poe', 'pim', 'lsf_daemons', 'rla', 'elim.jsdl', 'named', 'esub.tv', 'esub.openmp', 'esub.mvapich', 'esub.dprov', 'sbatchd', 'esub.bproc', 'esub.openmpi', 'esub.oldtvpoe', 'esub.mpichp4', 'elim.frequency', 'esub.tvlammpi', 'esub.oldpoe', 'lim', 'esub.ls_dyna', 'esub.tvmpich_gm', 'esub.fluent', 'nios', 'esub.gold', 'esub.mpich_gm', 'esub.pvm', 'esub.intelmpi', 'esub.mpich_mx', 'eauth.krb5', 'res', 'tmp.elim.sa', 'eauth', 'esub.tvpoe', 'mesub', 'esub.mpich2', 'melim', 'esub.lammpi'] ['brsvjob', 'lspasswd', 'bmgroup', 'bpost', 'btop', 'bclusters', 'lsplace', 'bjdepinfo', 'lsreghost', 'brsvs', 'bparams', 'bgadd', 'lsrun', 'lsload', 'breconfig', 'lsfrestart', 'bconf', 'bmod', 'bsub', 'lsunlockhost', 'bmodify', 'bread', 'bacct', 'lsfrsv', 'lsgrun', 'bslots', 'bapp', 'bjobs', 'lsmail', 'lsfstartup', 'lsmake4', 'lslockhost', 'lsfshutdown', 'bpeek', 'lsrun.sh', 'lslogin', 'bimages', 'bchkpnt', 'bwait', 'lsfhadoop.sh', 'bsla', 'brsvmod', 'lsrtasks', 'blimits', 'busers', 'bresources', 'bqueues', 'brequeue', 'bmg', 'lsrcp', 'lseligible', 'lshosts', 'lsloadadj', 'breboot', 'lsacct', 'lsclusters', 'bugroup', 'lsltasks', 'lsadmin', 'bstatus', 'bgbroker', 'bgdel', 'bentags', 'lsportcheck', 'brsvsub', 'lsf-start-spark.sh', 'bqc', 'bhpart', 'lsf-spark-shell.sh', 'lsmakerm', 'lsf-spark-submit.sh', 'brestart', 'bswitch', 'bjgroup', 'lsreconfig', 'lammpirun_wrapper', 'lsf-stop-spark.sh', 'badmin', 'bbot', 'bstop', 'lsinfo', 'brun', 'bhist', 'bhosts', 'bgmod', 'brsvadd', 'bkill', 'brlainfo', 'brsvdel', 'xagent', 'bresize', 'bmig', 'lsmon', 'lsid', 'bgpinfo', 'lsmake', 'bresume', 'blaunch', 'lsacctmrg'] ['csm_bb_vg_create', 'csm_node_find_job', 'csm_cluster_query_state', 'csm_allocation_create', 'csm_ib_cable_update', 'csm_allocation_query_active_all', 'csm_bb_lv_delete', 'csm_allocation_update_state', 'csm_switch_attributes_update', 'csm_soft_failure_recovery', 'csm_diag_run_query', 'csm_allocation_step_begin', 'csm_bb_vg_delete', 'csm_node_attributes_query_history', 'csm_allocation_query_details', 'csm_node_attributes_query_details', 'csm_diag_run_query_details', 'csm_ras_event_create', 'csm_diag_run_begin', 'csm_node_resources_query_all', 'csm_allocation_query', 'csm_ras_event_query_allocation', 'csm_switch_attributes_query', 'csm_node_attributes_query', 'csm_switch_attributes_query_details', 'csm_infrastructure_health_check', 'csm_node_attributes_update', 'csm_ras_msg_type_create', 'csm_ras_msg_type_delete', 'csm_ras_msg_type_query', 'csm_node_query_state_history', 'csm_switch_attributes_query_history', 'csm_allocation_step_query_active_all', 'csm_bb_lv_create', 'csm_node_resources_query', 'csm_allocation_delete', 'csm_ras_event_query', 'csm_allocation_resources_query', 'csm_diag_result_create', 'csm_node_delete', 'csm_ras_msg_type_update', 'csm_bb_vg_query', 'csm_ib_cable_query_history', 'csm_diag_run_end', 'csm_allocation_step_query', 'csm_allocation_step_query_details', 'csm_allocation_update_history', 'csm_allocation_step_end', 'csm_ib_cable_query', 'csm_jsrun_cmd', 'csm_bb_lv_query'] [] [] ['decoder'] ['ibmsquit', 'ibis', 'dump2slvl.pl', 'ibdiagpath', 'IBMgtSim', 'dump2psl.pl', 'ibdmchk', 'mkSimNodeDir', 'ibdiagui', 'ibdiagnet', 'RunSimTest', 'ibdmtr', 'ibtopodiff', 'ibdmsh', 'ibnlparse', 'ibmssh'] ['jsrun', 'jswait', 'jskill', 'query_env', 'export_slurm_env', 'jsm_simulator', 'js_task_info', 'admin', 'jsproxy', 'jslist', 'export_smpi_env', 'jsm', 'stock'] ['hiera', 'facter', 'puppet', 'facter-ng.bat'] ['mmtrace', 'mmsysmon.py', 'mmnfsfuncs', 'mmcesnfsmonitor', 'mmjob', 'mmdelcallback', 'tsdf', 'tschfileset', 'tslsdisk', 'tslspolicy', 'tslsfs', 'tsdelsnapshot', 'tslsfileset', 'tsnsdaccess', 'tscrsnapshot', 'tslspool', 'tssnapdir', 'tsedquota', 'tsusercmd', 'tslssnapshot', 'tsstatus', 'mmcrnsd', 'tsgetscsiinfo', 'mmqosnice', 'mmsetquota', 'mmdelfileset', 'tsprpreemptabort', 'cleanupkeystonedb', 'mmsdrfsdef.Linux', 'mmcesuserauthcrservice', 'mmdumpfilocks', 'tschdisk', 'tsaddpdisk', 'tsctl', 'tskafkaauth', 'tsdbfs', 'tscheckquota', 'tsfsctl', 'tsrpldisk', 'tschpdisk', 'tsrecgroupserver', 'tscmd', 'tsreclaimspace', 'tscrrecgroup', 'tschstoragepool', 'tsrestripefs', 'tsdefragfs', 'tsfileid', 'tsdsh', 'tsdeldisk', 'tsquotaon', 'tschfs', 'tsdefedquota', 'tsunmount', 'tsdelpdisk', 'tsressnapshot', 'tscrvdisk', 'tsquotaoff', 'tsexpelnode', 'tslsvdisk', 'tscrfs', 'tschmgr', 'tslsrecgroup', 'tslsrecoverygroupevents', 'tsdelvdisk', 'tsnsddiscover', 'tsdefquotaoff', 'tscrfileset', 'tsdelfs', 'tsdbvdisk', 'tsdelfileset', 'tsadddisk', 'tscachectl', 'tsdefquotaon', 'tschcarrier', 'tsauth', 'tslsqos', 'tslspdisk', 'tsnsdrediscover', 'tsremount', 'tsdelrecgroup', 'tschpool', 'tsrepquota', 'tschqos', 'tschrecgroup', 'tsfsck', 'tsdiag', 'tssbrff', 'mmlsfileset', 'mmexectsmcmd', 'mmgetkafkaspecinfo', 'mmfs', 'mmchconfig', 'ces.snap.py', 'mmperfmon', 'tsgetacl', 'clstrwatchcallbacks', 'mmcessmblsconfig', 'tslsattr', 'mmcesmonitord', '.links', 'mmnfsgrace', 'mmhelp-apolicy', 'mmpmon', 'mmcesnfsdelexport', 'mmchpolicy', 'gui.snap.py', 'tspcache', 'perfmon.snap.py', 'mmsdrquerydef', 'mmlsqos', 'mmxargs', 'tschattr', 'mmclidecode', 'clstrwatchconsumermanager', 'mmfsctl', 'mmpsnap', 'mmccrnv', 'perf.snap.py', 'mmcespnfsip', 'mmnfsnodeback', 'tsimgrestore', 'mmcesuserauthckservice', 'mmchnodeclass', 'pymmcesnfslsexport.py', 'mmdelacl', 'mmumount', 'mmcrnodeclass', 'mmsysmonc', 'tspcacheevict', 'mmexecvfile', 'sshwrap', 'mmgetifconf', 'mmfs-ppc64-rh4', 'sysmon.snap.py', 'mmimgrestore', 'mmcesobjaccesslinkfset', 'mmchecksubsys', 'mmcesop', 'tspmon', 'mmdefedquota', 'mmdelsnapshot', 'mmreclaimspace', 'mmsysmoncontrol', 'tsspectrumdiscover', 'mmyfields', 'mmchnode', 'mmrestorefs', 'mmcallhome', 'mmexportfs', 'mmcesnfsloadexport', 'tslspool34', 'mmnfsmonitor', 'mmsnmpagentd30', 'tsfindinode', 'mmfsfuncs.Linux', 'mmdumpperfdata', 'mmcesobjcrbase', 'mmdsh', 'objmetric_count.py', 'mmauditmount', 'mmcessmblsexport', 'mmdevdiscover', 'mmlsnode', 'mmautoload', 'mmcesnfscrexport', 'mmchnsd', 'mmfileid', 'mmcesnfsfuncs', 'mmcesrecovernode', 'mmlsfs', 'mmcollectdebugdata', 'tseditacl', 'tsbuhelper', 'tslinkfileset', 'tspreparedisk', 'mmrpldisk', 'mmdelnode', 'mmceslog', 'mmcrfsc', 'mmcesblockfuncs', 'mmgensymtable', 'mmfsd', 'mmnfsinstall', 'mmdspmsg', 'mmclone', 'mmchfs', 'mmlsdisk', 'mmnfstakeover', 'tsyselect', 'mmnfsup', 'mmcessmbcrexport', 'tsaddrmap', 'mmnetverify', 'mmchpool', 'msgqueue.snap.py', 'mmcesobjlscfg', 'tsrestorefileset', 'mmbuildgpl', 'mmsmbman', 'tsfindname', 'mmcesloadmonitor', 'mmcesobjaccess', 'mmaddcallback', 'mmcesobjpolicyfuncs', 'mmcessmbdelexport', 'msgqueueDaemonManager', 'core.snap.py', 'tsgskkm', 'mmauth', 'mmedquota', 'mmshutdown', 'tsdbmemleakparse', 'mmadquery', 'mmsdrcli', 'mmccr', 'mmcesobjchstoragepolicy', 'mmcesnfschcfg', 'tswatchmonitor', 'mmmigratefs', 'mmputacl', 'mmlscluster', 'commonsnap.py', 'mmcesservice', 'mmadddisk', 'tslsmgr', 'tssbrindex', 'mmafmlocal', 'mmlsperfdata', 'mmnfsuninstall', 'mmcmi', 'mmcesobjs3', 'tspcachescan', 'kdump-4.14.0-115.14.1.el7a.ppc64le', 'mmlsnsd', 'mmchcluster', 'mmunmount', 'mmnfsquorumloss', 'mmcesnetdeladdress', 'mmlsquota', 'mmces', 'pymmcesnfsfuncs.py', 'tsputacl', 'mmchqos', 'tsprshowfence', 'gpfsrunlevel', 'mmimgbackup', 'mmsdrrestore', 'tsqosnice', 'mmsdrserv', 'mmmsgqueue', 'mmcesmmcdelexport', 'mmlinkfileset', 'mmrestoreconfig', 'mmdelnodeclass', 'mmsmbfuncs', 'mmcesobjcfgman', 'mmfixcfg', 'mmcesnfslsexport', 'tsdbmemleak', 'mmaudit', 'mmcesnfslscfg', 'mmsmbsupportedoptions', 'mmafmconfig', 'mmlscallback', 'mmlsmgr', 'tsbackup', 'mmcesminfuncs', 'mmfsmount', 'mmcesmmcchexport', 'tsrestripefile', 'kdump', 'mmimportfs', 'mmcesobjcrring', 'mmnfs', 'mmcommon', 'mmcesnetmvaddress', 'mmsnmpagentd', 'mmcesobjfuncs', 'gui.callhome.py', 'tsbackup33', 'lxtrace', 'mmsdrfsdef', 'mmsmb', 'mmobj', 'tsprclear', 'mmceshdfsfuncs', 'mmcesnetworkmonitor', 'tspcacheutil', 'mmqos', 'mmlspolicy', 'mmrestripefs', 'mmcessmbfuncs', 'mmaddnode', 'mmblock', 'mmcrfs', 'mmmount', 'tsprreadres', 'mmnsddiscover', 'mmprotocoltrace', 'mmglobfuncs', 'tsprreadkeys', 'mmnfsdown', 'gpfs.snap', 'object.snap.py', 'mmcesnetaddaddress', 'mmcesobjchcfg', 'mmrsh', 'mmcesobjmr', 'mmeditacl', 'auditConsumerManager', 'mmlsconfig', 'mmsync', 'mmgetacl', 'mmcesuserauthrmservice', 'mmhealth', 'tsdelacl', 'mmremote', 'mmpercentencode', 'mmcloudfuncs', 'daemonize', 'mmcesnfschexport', 'tsclone', 'callhome.snap.py', 'clstrwatchreplaymanager', 'tsnetverify', 'mmstartup', 'mmcachectl', 'mmgskkm', 'mmdefragfs', 'mmsnapdir', 'tsapolicy', 'mmrcmd', 'mmexpelnode', 'mmsdrquery', 'ece.callhome.py', 'mmchdisk', 'mmcesnetdown', 'mmlslicense', 'mmrestripefile', 'mmcrfileset', 'mmnfscleanup', 'mmlogmsg', 'mmcessmbexportacl', 'mmchlicense', 'mmsetrcmd', 'tsclwatchrules', 'mmdynamicmap', 'tssetquota', 'tsprreserve', 'wftopics', 'mmvaryonvg', 'mmsnmpagentd10', 'mmbackupconfig', 'mmdefquotaon', 'mmlsattr', 'mmcesfuncs', 'mmfsadm', 'mmcesmmccrexport', 'runmmfs', 'mmafmcmd', 'ccrrestore', 'mmunlinkfileset', 'basicsnap.py', 'mmafmhomeconfig', 'auth.snap.py', 'fab3.snap.py', 'mmuserauth', 'object.callhome.py', 'mmlogsort', 'mmdf', 'mmcesobjcrstoragepolicy', 'mmdefquotaoff', 'mmtracectl', 'mmdump', 'tsprquery', 'mmfsenv', 'mmfsfuncs', 'mmrepquota', 'mmcesdr', 'mmcesnode', 'tslsquota', 'mmdsm', 'mmdelnsd', 'mmnfsinit', 'mmcrsnapshot', 'mmlockf', 'mmcesauthfuncs', 'network.callhome.py', 'mmglobfuncs.Linux', 'tsprinquiry', 'nfs.snap.py', 'mmcesnetlsaddress', 'mmapplypolicy', 'mmdumpkthreads', 'tswatchgpfsconduit', 'mmcessmbchconfig', 'perfmon.callhome.py', 'mmauditpreunmount', 'mmrcp', 'scpwrap', 'mmremotefs', 'tsunlinkfileset', 'mmcrcluster', 'mmnfspreunmount', 'mmcessmbchexport', 'tsauditconsumer', 'mmchattr', 'mmdeldisk', 'mmfsck', 'smb.snap.py', 'mmcesobjdepstoragepolicy', 'mmcheckquota', 'mmprodname', 'mmdelfs', 'mmcallhremote', 'mmgetstate', 'mmcesuserauthlsservice', 'mmcesnetup', 'mmremotecluster', 'tsstarthelper', 'mmcloudgateway', 'mmgetconfdata', 'tschpolicy', 'mmchmgr', 'mmcesnetchaddress', 'mmsmbvalidoptions', 'mmchfileset', 'mmwatch', 'tsprregister', 'mmstartpolicy', 'hadoop.snap.py', 'mmquotaoff', 'mmcesmonitor', 'mmquotaon', 'msgqueueservicesmonitormanager', 'mmlspool', 'mmlsmount', 'mmccrmonitor', 'mmbackup', 'mmlsnodeclass', 'lxtrace-4.14.0-115.14.1.el7a.ppc64le', 'mmrefresh', 'mmnfsrecovernode', 'mmpercentdecode', 'wftopichk', 'tspcachesnapdiff', 'mmdiag', 'mmlssnapshot', 'mmcesobjlsstoragepolicy', 'mmafmctl', 'mmstatdcallout', 'mmksh', 'sshscpwrap'] Path provided by --with-executables-search-path ['win32fe.exe', 'win32feutils.dll'] child config.packages.lgrind 0.007484 ================================================================================ TEST alternateConfigureLibrary from config.packages.slepc(/gpfs/alpine/csc314/scratch/adams/petsc/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 [] child config.packages.slepc 0.001262 ================================================================================ TEST alternateConfigureLibrary from config.packages.gmp(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.gmp(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.gmp 0.000951 ================================================================================ TEST alternateConfigureLibrary from config.packages.mpfr(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.mpfr(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.mpfr 0.000970 ================================================================================ TEST alternateConfigureLibrary from config.packages.giflib(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.giflib(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.giflib 0.000943 ================================================================================ TEST alternateConfigureLibrary from config.packages.egads(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.egads(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.egads 0.000943 ================================================================================ TEST alternateConfigureLibrary from config.packages.ctetgen(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ctetgen(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ctetgen 0.000942 ================================================================================ TEST alternateConfigureLibrary from config.packages.concurrencykit(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.concurrencykit(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.concurrencykit 0.000946 ================================================================================ TEST locateC2html from config.packages.c2html(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/c2html.py:33) TESTING: locateC2html from config.packages.c2html(config/BuildSystem/config/packages/c2html.py:33) Looking for default C2html executable Checking for program /sw/sources/lsf-tools/2.0/summit/bin/c2html...not found Checking for program /sw/summit/xalt/1.2.0/bin/c2html...not found Checking for program /sw/summit/forge/20.0.1/bin/c2html...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/c2html...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/c2html...not found Checking for program /sw/summit/gcc/6.4.0/bin/c2html...not found Checking for program /sw/summit/cuda/10.1.243/bin/c2html...not found Checking for program /usr/bin/c2html...not found Checking for program /usr/sbin/c2html...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/darshan-runtime-3.1.7-cnvxicgf5j4ap64qi6v5gxp67hmrjz43/bin/c2html...not found Checking for program /sw/sources/hpss/bin/c2html...not found Checking for program /opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/etc/c2html...not found Checking for program /opt/ibm/spectrumcomputing/lsf/10.1.0.9/linux3.10-glibc2.17-ppc64le-csm/bin/c2html...not found Checking for program /opt/ibm/csm/bin/c2html...not found Checking for program /usr/local/bin/c2html...not found Checking for program /usr/local/sbin/c2html...not found Checking for program /opt/ibm/flightlog/bin/c2html...not found Checking for program /opt/ibutils/bin/c2html...not found Checking for program /opt/ibm/spectrum_mpi/jsm_pmix/bin/c2html...not found Checking for program /opt/puppetlabs/bin/c2html...not found Checking for program /usr/lpp/mmfs/bin/c2html...not found Checking for program /gpfs/alpine/scratch/adams/csc314/petsc/lib/petsc/bin/win32fe/c2html...not found Unable to find programs ['c2html'] providing listing of each search directory to help debug Path provided in Python program Path provided by default path ['bsub', 'bjob', 'showusage'] ['mpirun', 'ibrun', 'ibrun.symm', 'aprun', 'jsrun', 'ld', 'xalt_helper_functions.sh'] ['ddt-debugger-mps', 'ddt', 'ddt-debugger', 'allinea-client', 'ddt-mpirun', 'forge-probe', 'forge', 'make-profiler-libraries', 'ddt-debugger-ll', 'map', 'ddt-client'] ['shmemrun', 'profile2mat.pl', 'oshrun', 'oshmem_info', 'orterun', 'orted', 'orte-server', 'orte-info', 'orte-clean', 'ompi_info', 'ompi-server', 'ompi-clean', 'mpitool', 'mpirun', 'mpijob', 'mpiexec', 'jumpshot', 'get_nl_setting', 'efix', 'alias.pl', 'aggregate_profile.pl', 'stock', 'shmemfort', 'shmemcxx', 'shmemcc', 'shmemc++', 'shmemCC', 'oshfort', 'oshcxx', 'oshcc', 'oshc++', 'oshCC', 'ortecc', 'opal_wrapper', 'mpixlf', 'mpixlc', 'mpixlC', 'mpipgifort', 'mpipgicc', 'mpipgic++', 'mpifort', 'mpif90', 'mpif77', 'mpicxx', 'mpicc', 'mpic++', 'mpiCC', 'mpip-jsrun'] ['ccmake', 'cmake', 'ctest', 'cpack'] ['g++', 'c++', 'powerpc64le-none-linux-gnu-g++', 'powerpc64le-none-linux-gnu-c++', 'gfortran', 'powerpc64le-none-linux-gnu-gfortran', 'gcj', 'powerpc64le-none-linux-gnu-gcj', 'jcf-dump', 'gcov', 'gcov-tool', 'gcov-dump', 'cpp', 'gcc', 'powerpc64le-none-linux-gnu-gcc-6.4.0', 'gcc-ar', 'powerpc64le-none-linux-gnu-gcc', 'powerpc64le-none-linux-gnu-gcc-ar', 'gcc-nm', 'powerpc64le-none-linux-gnu-gcc-nm', 'gcc-ranlib', 'powerpc64le-none-linux-gnu-gcc-ranlib', 'jv-convert', 'gij', 'grmic', 'grmiregistry', 'gcj-dbtool', 'gappletviewer', 'gjarsigner', 'gkeytool', 'gjar', 'gcjh', 'gjavah', 'gnative2ascii', 'gorbd', 'grmid', 'gserialver', 'gtnameserv', 'gc-analyze', 'rebuild-gcj-db', 'aot-compile'] ['cuobjdump', 'cuda-gdb', 'cuda-gdbserver', 'gpu-library-advisor', 'cuda-memcheck', 'nsight', 'nsight_ee_plugins_manage.sh', 'nv-nsight-cu-cli', 'bin2c', 'crt', 'cudafe++', 'fatbinary', 'nvcc', 'nvcc.profile', 'nvlink', 'ptxas', 'nvdisasm', 'nvprof', 'nvprune', 'computeprof', 'nvvp', 'cuda-install-samples-10.1.sh'] ['sview', 'strigger', 'sstat', 'sshare', 'srun', 'sreport', 'squeue', 'sprio', 'smap', 'sinfo', 'sgather', 'sdiag', 'scontrol', 'scancel', 'sbcast', 'sbatch', 'sattach', 'salloc', 'sacctmgr', 'sacct', 'qsub', 'tracejob', 'qterm', 'qstop', 'qstat', 'qstart', 'qsig', 'qselect', 'qrun', 'qrls', 'qrerun', 'qorder', 'qnodes', 'qmsg', 'qmove', 'qmgr', 'qhold', 'qgpureset', 'qgpumode', 'qenable', 'qdisable', 'qdel', 'qchkpt', 'qalter', 'printtracking', 'printserverdb', 'printjob', 'pbsnodes', 'pbsdsh', 'pbs_track', 'nqs2pbs', 'hostn', 'chk_tree', 'jobsub', 'jobstat', 'ctags', 'diffstat', 'rpmsign', 'swig', 'ccache-swig', 'ocs', 'cscope-indexer', 'cscope', 'doxygen', 'unwrapdiff', 'splitdiff', 'rediff', 'recountdiff', 'lsdiff', 'interdiff', 'grepdiff', 'flipdiff', 'fixcvsdiff', 'filterdiff', 'espdiff', 'editdiff', 'dehtmldiff', 'combinediff', 'yacc', 'byacc', 'indent', 'rlog', 'rcsmerge', 'rcsfreeze', 'rcsdiff', 'rcsclean', 'rcs', 'merge', 'ident', 'co', 'ci', 'svnversion', 'svnsync', 'svnserve', 'svnrdump', 'svnlook', 'svndumpfilter', 'svnadmin', 'svn', 'intltoolize', 'intltool-update', 'intltool-prepare', 'intltool-merge', 'intltool-extract', 'gettextize', 'autopoint', 'stap-report', 'stapsh', 'staprun', 'stap-merge', 'stap-prep', 'stap', 'screen', 'rhn_register', 'whiptail', 'subscription-manager', 'rhsmcertd', 'rhsm-debug', 'rct', 'consolehelper', 'pyinotify', 'easy_install-2.7', 'easy_install', 'snmpwalk', 'snmpvacm', 'snmpusm', 'snmptrap', 'snmptranslate', 'snmptls', 'snmptest', 'snmptable', 'snmpstatus', 'snmpset', 'snmpnetstat', 'snmpinform', 'snmpgetnext', 'snmpget', 'snmpdf', 'snmpdelta', 'snmpbulkwalk', 'snmpbulkget', 'encode_keychange', 'chardetect', 'atopsar', 'atopd', 'atopconvert', 'atop', 'abrt-dump-oops', 'abrt-action-save-kernel-data', 'abrt-action-analyze-oops', 'abrt-action-trim-files', 'abrt-action-perform-ccpp-analysis', 'abrt-action-list-dsos', 'abrt-action-install-debuginfo', 'abrt-action-generate-core-backtrace', 'abrt-action-generate-backtrace', 'abrt-action-analyze-vulnerability', 'abrt-action-analyze-core', 'abrt-action-analyze-ccpp-local', 'abrt-action-analyze-c', 'abrt-action-analyze-backtrace', 'abrt-watch-log', 'abrt-handle-upload', 'abrt-action-save-package-data', 'abrt-action-notify', 'abrt-action-analyze-xorg', 'reporter-ureport', 'reporter-rhtsupport', 'libtar', 'satyr', 'orig', 'git', 'git-receive-pack', 'git-upload-archive', 'git-upload-pack', 'git-shell', 'lex', 'tset', 'pk12util', 'as', 'lpr.cups', 'speaker-test', 'manpath', 'hwloc-gather-topology', 'hwloc-calc', 'rev', 'snmpconf', 'sctp_darn', 'trust', 'nm', 'fc-pattern', 'ucs2any', 'zforce', 'groups', 'gunzip', 'tracepath', 'rdma_xclient', 'unalias', 'db_upgrade', 'dbus-uuidgen', 'uuidgen', 'uname', 'df', 'fc-match', 'evim', 'schemagen', 'sessreg', 'rdoc', 'gdbus-codegen', 'perl', 'perl5.16.3', 'egrep', 'mlxcables', 'recode-sr-latin', 'pkcheck', 'GET', 'rvim', 'addr2line', 'gsdj500', 'rpmbuild', 'amixer', 'unexpand', 'ypchsh', 'yppasswd', 'ypchfn', 'install', 'cancel.cups', 'msggrep', 'mwm', 'gcc-nm', 'remunge', 'ibgenperm', 'thumbpdf', 'nsenter', 'clean-binary-files', 'httpcfg', 'mlnx_dump_parser', 'ghci', 'autoexpect', 'ntpstat', 'texluac', 'dtestsrq', 'lz4cat', 'pkttyagent', 'python2', 'pkla-admin-identities', 'hpc', 'tail', 'size', 'fc-query', 'mkluatexfontdb', 'dbus-cleanup-sockets', 'nisdomainname', 'ldapurl', 'xsd', 'startx', 'crash', 'mcdiff', 'make', 'gslp', 'mktexfmt', 'pmafm', 'xdg-desktop-icon', 'ldappasswd', 'csh', 'printenv', 'vncconfig', 'wqdump_ext', 'gendiff', 'mst_cable', 'X', 'mstvpd', 'zmore', 'db_hotbackup', 'signver', 'systemctl', 'amsvis', 'tbl', 'xmessage', 'servertool', 'sn', 'embedspu', 'rview', 'nohup', 'grops', 'geoipupdate', 'xfd', 'rm', 'infotocap', 'pwscore', 'eu-objdump', 'mysql', 'mailq.postfix', 'ptx', 'systemd-loginctl', 'mstop', 'rxe_cfg', 'ar', 'ccrewrite', 'diff-jars', 'python', 'pmsocks', 'migspeed', 'xmbind', 'objcopy', 'alias', 'dos2unix', 'ca-legacy', 'tclsh', 'ofed_rpm_info', 'hwloc-assembler-remote', 'vimtutor', 'lprm', 'pygtk-demo', 'jjs', 'prtstat', 'seq', 'col', 'pdcp', 'eu-strip', 'ib_acme', 'resourcedump', 'dirname', 'fc-cache-64', 'lesskey', 'date', 'basename', 'grep', 'geoiplookup6', 'ssh-copy-id', 'xterm', 'svcutil', 'libpng-config', 'dvilualatex', 'db_load', 'systemd-notify', 'dracut', 'texconfig', 'haddock', 'xrandr', 'umount', 'xdg-mime', 'prlimit', 'ucx_info', 'infokey', 'pstree.x11', 'mono-test-install', 'write', 'geqn', 'xdg-screensaver', 'glib-mkenums', 'sudoedit', 'mst', 'ghc-pkg-7.6.3', 'wall', 'dgawk', 'ibv_polldcinfo', 'ppc64le-redhat-linux-gcc', 'gcc', 'xzcat', 'simpdftex', 'cvsbug', 'pdflatex', 'mlxburn', 'ping', 'column', 'fc-cache', 'pinentry-curses', 'pmlogextract', 'scp', 'stdbuf', 'mlxcables_ext', 'renice', 'file', 'raw_ethernet_bw', 'msguniq', 'appletviewer', 'pdf2dsc', 'mlxpci', 'dig', 'gem', 'coredumpctl', 'eu-size', 'conjure', 'mlnx_conf_mgr.sh', 'alsaunmute', 'command', 'cd', 'sha1sum', 'xsltproc', 'hp2ps', 'erb', 'update-desktop-database', 'gtk-update-icon-cache', 'crontab', 'icewm', 'mktexmf', 'whoami', 'ttmkfdir', 'uxterm', 'ucx_perftest', 'ibcongest', 'mlnx_perf', 'funzip', 'ghc', 'pkg-config', 'nvidia-persistenced', 'unzipsfx', 'bootctl', 'fc-conflist', 'pango-querymodules-64', 'splain', 'curl', 'arch', 'xinit', 'pfbtopfa', 'mozroots', 'setsid', 'setterm', 'gr2fonttest', 'wqdump', 'gzexe', 'gtk-launch', 'compare', 'aseqdump', 'cc', 'nvidia-debugdump', 'icesh', 'udevadm', 'lc', 'icehelp', 'gvimdiff', 'taskset', 'xml2-config', 'pkill', 'bzmore', 'mogrify', 'systemd-analyze', 'mkdir', 'lpq.cups', 'libpng15-config', 'mc', 'repstopdf', 'ld', 'ld.bfd', 'systemd-sysv-convert', 'nproc', 'dbpmda', 'cksum', 'psed', 's2p', 'msghack', 'tabs', 'systemd-coredumpctl', 'jmap', 'libtoolize', 'etags.emacs', 'gtester', 'pmie', 'fg', 'ps2pdfwr', 'peekfd', 'ib_atomic_bw', 'preconv', 'dtestx', 'aria_dump_log', 'gpg-error', 'pmtrace', 'allec', 'post-grohtml', 'tree', 'net-snmp-create-v3-user', 'bunzip2', 'zcat', 'xzless', 'lscpu', 'xzmore', 'udaddy', 'alsamixer', 'find2perl', 'dtestcm', 'iconv', 'rpm2cpio', 'desktop-file-edit', 'ps2pdf13', 'ldapexop', 'hwloc-assembler', 'rpmquery', 'ibv_umr', 'chown', 'pdsh', 'gcc-ar', 'pdb2mdb', 'unshare', 'db_replicate', 'nsupdate', 'cpio', 'xmvn-builddep', 'comm', 'dbus-monitor', 'automake-1.13', 'automake', 'eu-stack', 'runghc-7.6.3', 'xgettext', 'chsh', 'eqn', 'gdb', 'lualatex', 'cpupower', 'build-jar-repository', 'gacutil2', 'gawk', 'rftp', 'kpsewhere', 'c99', 'nvidia-smi', 'reset', 'xdg-open', 'zip', 'split', 'mlx_fpga_ext', 'catchsegv', 'ghc-7.6.3', 'keytool', 'aria_chk', 'mlxreg', 'mstregdump', 'alsaucm', 'mlxlink', 'rename', 'chktrust', 'true', 'db_recover', 'mktexlsr', 'xpr', 'skill', 'otflist', 'gfortran', 'gtroff', 'uil', 'jvmjar', 'zgrep', 'elfedit', 'xclipboard', 'passwd', 'prove', 'eu-nm', 'openssl', 'su', 'kibitz', 'kpsestat', 'pgrep', 'printf', 'gtbl', 'ib_read_lat', 'zipdetails', 'gtar', 'jarsigner', 'mysql_find_rows', 'fold', 'gconf-merge-tree', 'munge', 'ln', 'tty', 'uuclient', 'stat', 'chfn', 'find-jar', 'wish', 'pmdiff', 'mkocp', 'lchsh', 'jconsole', 'luit', 'diff', 'rpmdb', 'gcore', 'rsync', 'fc-list', 'dmesg', 'libtool', 'mkfontscale', 'zsoelim', 'mstmcra', 'pod2usage', 'xjc', 'uptime', 'dump2slvl.pl', 'ldapwhoami', 'testrb', 'alsatplg', 'setarch', 'dbus-test-tool', 'msgfmt', 'alsa-delay', 'gview', 'texconfig-dialog', 'ps2pdf14', 'cairo-sphinx', 'sctp_test', 'ps2epsi', 'pmlogconf', 'dwz', 'amidi', 'updmap-sys', 'compile_et', 'man', 'cmp', 'hostnamectl', 'dd', 'tmon', 'vdir', 'pldd', 'sctp_status', 'iceauth', 'getfacl', 'xrdb', 'runhaskell-ghc', 'udpong', 'hwloc-distances', 'sh', 'db_stat', 'ib_write_bw', 'fmt', 'fc-validate', 'mcs', 'ibv_cc_pingpong', 'base64', 'ibv_devinfo', 'ibv_xsrq_pingpong', 'mlxreg_ext', 'sqlite3', 'ps2ps2', 'dapltest', 'tar', 'head', 'ps2pdf', 'ri', 'serialver', 'script', 'pstree', 'msgcomm', 'finger', 'fallocate', 'xzdec', 'whatis', 'gencat', 'perlthanks', 'perlbug', 'xconsole', 'xclock', 'wsdl', 'mlxtrace', 'aclocal', 'aclocal-1.13', 'red', 'readlink', 'unix2mac', 'vim', 'zegrep', 'certutil', 'hwloc-info', 'xinput', 'hwloc-distrib', 'gzip', 'ypcat', 'localedef', 'emacs', 'pmlogsummary', 'mlnx_interface_mgr.sh', 'mysql_config', 'gpgsplit', 'zipinfo', 'unzip', 'updatedb', 'idn', 'systemd-run', 'pwd', 'mailx', 'xzdiff', 'db_dump185', 'wish8.5', 'ibv_devices', 'ls', 'mcedit', 'iptables-xml', 'db_dump', 'unlz4', 'xdg-icon-resource', 'arecord', 'kernel-install', 'otftobdf', 'sqlmetal', 'mysqlslap', 'lp', 'dbus-run-session', 'xcursorgen', 'mremote', 'gsbj', 'ldapadd', 'unpigz', 'pigz', 'ed', 'gss-client', 'ibdiagm.sh', 'm4', 'systemd-path', 'kpsetool', 'cal', 'raw_ethernet_burst_lat', 'mpi-selector', 'lprsetup.sh', 'rvi', 'mono', 'xrefresh', 'zipsplit', 'lp.cups', 'batch', 'mysqladmin', 'ib_write_lat', 'ldapcompare', 'lprm.cups', 'which', 'msginit', 'oldfind', 'toe', 'unlink', 'lz4c', 'ppc64le-redhat-linux-g++', 'c++', 'g++', 'ppc64le-redhat-linux-c++', 'montage', 'ghostscript', 'diff3', 'run-singularity', 'dcgmi', 'ibdiagpath', 'pmfind', 'free', 'ghc-doc-index', 'gpg-zip', 'tcsh', 'mconfig', 'gpgv2', 'jdb', 'pmpython', 'allneeded', 'icewmhint', 'pinky', 'rmid', 'ebrowse', 'lsblk', 'xmlwf', 'memhog', 'ruby', 'eu-findtextrel', 'dislocate', 'vncviewer', 'less', 'ibdev2netdev', 'lsmem', 'systemd-ask-password', 'kpsereadlink', 'lstopo-no-graphics', 'bzcat', 'python2-config', 'cat', 'ngettext', 'gtk-query-immodules-3.0-64', 'apropos', 'dimax_init', 'icewmtray', 'linux64', 'mstcongestion', 'gdb-add-index', 'who', 'dviluatex', 'xwud', 'pstack', 'ldapmodrdn', 'bzgrep', 'ucx_read_profile', 'ionice', 'bison', 'rmic', 'mktexpk', 'ppc32', 'ranlib', 'jhat', 'slabtop', 'x11perf', 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'iptunnel', 'dkms', 'resizepart', 'sysctl_perf_tuning', 'xfs_mkfile', 'repquota', 'ip6tables-restore', 'lusermod', 'wipefs', 'sshd', 'ifdown', 'cache_restore', 'arp', 'pvremove', 'clock', 'tickadj', 'ldconfig', 'selinuxdefcon', 'lvreduce', 'vigr', 'quot', 'vgdisplay', 'lchage', 'arping', 'ibacm', 'ibcheckportstate', 'smparquery', 'insmod', 'addnote', 'lvmetad', 'ibprintca.pl', 'switch_root', 'hwclock', 'kpartx', 'ifstat', 'sysinfo-snapshot.py', 'setsebool', 'edquota', 'killall5', 'pidof', 'anacron', 'service', 'sfdisk', 'vgimport', 'vgrename', 'sm-notify', 'lvmdiskscan', 'lvscan', 'selinuxenabled', 'nologin', 'atd', 'accessdb', 'ibcheckstate', 'userdel', 'lsvio', 'ibnodes', 'weak-modules', 'quotaoff', 'setquota', 'era_invalidate', 'automount', 'xfs_copy', 'sosreport', 'consoletype', 'phc_ctl', 'safe_finger', 'ppc64_cpu', 'mlnx_eswitch_set', 'uesensor', 'rpc.mountd', 'ls-vscsi', 'ibsysstat', 'modprobe', 'ibstatus', 'lgroupadd', 'vgs', 'rtacct', 'pdata_tools', 'telinit', 'setup_mr_cache.sh', 'poweroff', 'lsof', 'slattach', 'visudo', 'ibcheckportwidth', 'update-pciids', 'nscd', 'update_flash', 'smtp-sink', 'mkswap', 'sushell', 'lvmconfig', 'mktree', 'xfs_admin', 'ctstat', 'lvrename', 'ibmirror', 'pam_tally2', 'chkconfig', 'pam_console_apply', 'xfs_io', 'ib2ib_setup', 'nfsdcltrack', 'mksquashfs', 'umount.nfs4', 'arpd', 'rtas_ibm_get_vpd', 'setcap', 'rtas_dbg', 'chroot', 'ibqueryerrors', 'grubby', 'timemaster', 'ibchecknet', 'installkernel', 'vgmerge', 'rpc.idmapd', 'create-munge-key', 'routef', 'mount.nfs', 'pvmove', 'ip6tables', 'postmulti', 'ibnetdiscover', 'key.dns_resolver', 'request-key', 'alsabat-test.sh', 'genhostid', 'ibswportwatch.pl', 'postmap', 'init', 'ibprintswitch.pl', 'ether-wake', 'ifenslave', 'selinux_restorecon', 'fstrim', 'xfs_fsr', 'packer', 'lgroupdel', 'vgcreate', 'mount.nfs4', 'ethtool', 'fsck.cramfs', 'postalias', 'lvextend', 'vgconvert', 'saslpasswd2', 'netreport', 'mkfs.minix', 'cma_roce_mode', 'ibcheckwidth', 'thin_metadata_size', 'faillock', 'thin_rmap', 'ibcheckport', 'pvck', 'postkick', 'ibrouters', 'pvcreate', 'tcpd', 'vgck', 'rpcbind', 'ping6', 'opal-prd', 'thin_delta', 'mii-tool', 'showmount', 'ibccquery', 'devlink', 'set_irq_affinity.sh', 'ibping', 'nfsiostat', 'mlnx_tune', 'hvcsadmin', 'unix_chkpwd', 'getenforce', 'luseradd', 'set_poweron_time', 'semodule', 'convertquota', 'applygnupgdefaults', 'fuser', 'ibccconfig', 'compat_gid_gen'] ['darshan-mk-log-dirs.pl', 'darshan-gen-cc.pl', 'darshan-gen-cxx.pl', 'darshan-gen-fortran.pl', 'darshan-config'] ['htar', '5.0.2.9', '6.0.0.11', '5.0.2.11', 'hsi', '6.2.0.1', 'TA_Status', 'test_TA'] ['esub', 'esub.poe', 'pim', 'lsf_daemons', 'rla', 'elim.jsdl', 'named', 'esub.tv', 'esub.openmp', 'esub.mvapich', 'esub.dprov', 'sbatchd', 'esub.bproc', 'esub.openmpi', 'esub.oldtvpoe', 'esub.mpichp4', 'elim.frequency', 'esub.tvlammpi', 'esub.oldpoe', 'lim', 'esub.ls_dyna', 'esub.tvmpich_gm', 'esub.fluent', 'nios', 'esub.gold', 'esub.mpich_gm', 'esub.pvm', 'esub.intelmpi', 'esub.mpich_mx', 'eauth.krb5', 'res', 'tmp.elim.sa', 'eauth', 'esub.tvpoe', 'mesub', 'esub.mpich2', 'melim', 'esub.lammpi'] ['brsvjob', 'lspasswd', 'bmgroup', 'bpost', 'btop', 'bclusters', 'lsplace', 'bjdepinfo', 'lsreghost', 'brsvs', 'bparams', 'bgadd', 'lsrun', 'lsload', 'breconfig', 'lsfrestart', 'bconf', 'bmod', 'bsub', 'lsunlockhost', 'bmodify', 'bread', 'bacct', 'lsfrsv', 'lsgrun', 'bslots', 'bapp', 'bjobs', 'lsmail', 'lsfstartup', 'lsmake4', 'lslockhost', 'lsfshutdown', 'bpeek', 'lsrun.sh', 'lslogin', 'bimages', 'bchkpnt', 'bwait', 'lsfhadoop.sh', 'bsla', 'brsvmod', 'lsrtasks', 'blimits', 'busers', 'bresources', 'bqueues', 'brequeue', 'bmg', 'lsrcp', 'lseligible', 'lshosts', 'lsloadadj', 'breboot', 'lsacct', 'lsclusters', 'bugroup', 'lsltasks', 'lsadmin', 'bstatus', 'bgbroker', 'bgdel', 'bentags', 'lsportcheck', 'brsvsub', 'lsf-start-spark.sh', 'bqc', 'bhpart', 'lsf-spark-shell.sh', 'lsmakerm', 'lsf-spark-submit.sh', 'brestart', 'bswitch', 'bjgroup', 'lsreconfig', 'lammpirun_wrapper', 'lsf-stop-spark.sh', 'badmin', 'bbot', 'bstop', 'lsinfo', 'brun', 'bhist', 'bhosts', 'bgmod', 'brsvadd', 'bkill', 'brlainfo', 'brsvdel', 'xagent', 'bresize', 'bmig', 'lsmon', 'lsid', 'bgpinfo', 'lsmake', 'bresume', 'blaunch', 'lsacctmrg'] ['csm_bb_vg_create', 'csm_node_find_job', 'csm_cluster_query_state', 'csm_allocation_create', 'csm_ib_cable_update', 'csm_allocation_query_active_all', 'csm_bb_lv_delete', 'csm_allocation_update_state', 'csm_switch_attributes_update', 'csm_soft_failure_recovery', 'csm_diag_run_query', 'csm_allocation_step_begin', 'csm_bb_vg_delete', 'csm_node_attributes_query_history', 'csm_allocation_query_details', 'csm_node_attributes_query_details', 'csm_diag_run_query_details', 'csm_ras_event_create', 'csm_diag_run_begin', 'csm_node_resources_query_all', 'csm_allocation_query', 'csm_ras_event_query_allocation', 'csm_switch_attributes_query', 'csm_node_attributes_query', 'csm_switch_attributes_query_details', 'csm_infrastructure_health_check', 'csm_node_attributes_update', 'csm_ras_msg_type_create', 'csm_ras_msg_type_delete', 'csm_ras_msg_type_query', 'csm_node_query_state_history', 'csm_switch_attributes_query_history', 'csm_allocation_step_query_active_all', 'csm_bb_lv_create', 'csm_node_resources_query', 'csm_allocation_delete', 'csm_ras_event_query', 'csm_allocation_resources_query', 'csm_diag_result_create', 'csm_node_delete', 'csm_ras_msg_type_update', 'csm_bb_vg_query', 'csm_ib_cable_query_history', 'csm_diag_run_end', 'csm_allocation_step_query', 'csm_allocation_step_query_details', 'csm_allocation_update_history', 'csm_allocation_step_end', 'csm_ib_cable_query', 'csm_jsrun_cmd', 'csm_bb_lv_query'] [] [] ['decoder'] ['ibmsquit', 'ibis', 'dump2slvl.pl', 'ibdiagpath', 'IBMgtSim', 'dump2psl.pl', 'ibdmchk', 'mkSimNodeDir', 'ibdiagui', 'ibdiagnet', 'RunSimTest', 'ibdmtr', 'ibtopodiff', 'ibdmsh', 'ibnlparse', 'ibmssh'] ['jsrun', 'jswait', 'jskill', 'query_env', 'export_slurm_env', 'jsm_simulator', 'js_task_info', 'admin', 'jsproxy', 'jslist', 'export_smpi_env', 'jsm', 'stock'] ['hiera', 'facter', 'puppet', 'facter-ng.bat'] ['mmtrace', 'mmsysmon.py', 'mmnfsfuncs', 'mmcesnfsmonitor', 'mmjob', 'mmdelcallback', 'tsdf', 'tschfileset', 'tslsdisk', 'tslspolicy', 'tslsfs', 'tsdelsnapshot', 'tslsfileset', 'tsnsdaccess', 'tscrsnapshot', 'tslspool', 'tssnapdir', 'tsedquota', 'tsusercmd', 'tslssnapshot', 'tsstatus', 'mmcrnsd', 'tsgetscsiinfo', 'mmqosnice', 'mmsetquota', 'mmdelfileset', 'tsprpreemptabort', 'cleanupkeystonedb', 'mmsdrfsdef.Linux', 'mmcesuserauthcrservice', 'mmdumpfilocks', 'tschdisk', 'tsaddpdisk', 'tsctl', 'tskafkaauth', 'tsdbfs', 'tscheckquota', 'tsfsctl', 'tsrpldisk', 'tschpdisk', 'tsrecgroupserver', 'tscmd', 'tsreclaimspace', 'tscrrecgroup', 'tschstoragepool', 'tsrestripefs', 'tsdefragfs', 'tsfileid', 'tsdsh', 'tsdeldisk', 'tsquotaon', 'tschfs', 'tsdefedquota', 'tsunmount', 'tsdelpdisk', 'tsressnapshot', 'tscrvdisk', 'tsquotaoff', 'tsexpelnode', 'tslsvdisk', 'tscrfs', 'tschmgr', 'tslsrecgroup', 'tslsrecoverygroupevents', 'tsdelvdisk', 'tsnsddiscover', 'tsdefquotaoff', 'tscrfileset', 'tsdelfs', 'tsdbvdisk', 'tsdelfileset', 'tsadddisk', 'tscachectl', 'tsdefquotaon', 'tschcarrier', 'tsauth', 'tslsqos', 'tslspdisk', 'tsnsdrediscover', 'tsremount', 'tsdelrecgroup', 'tschpool', 'tsrepquota', 'tschqos', 'tschrecgroup', 'tsfsck', 'tsdiag', 'tssbrff', 'mmlsfileset', 'mmexectsmcmd', 'mmgetkafkaspecinfo', 'mmfs', 'mmchconfig', 'ces.snap.py', 'mmperfmon', 'tsgetacl', 'clstrwatchcallbacks', 'mmcessmblsconfig', 'tslsattr', 'mmcesmonitord', '.links', 'mmnfsgrace', 'mmhelp-apolicy', 'mmpmon', 'mmcesnfsdelexport', 'mmchpolicy', 'gui.snap.py', 'tspcache', 'perfmon.snap.py', 'mmsdrquerydef', 'mmlsqos', 'mmxargs', 'tschattr', 'mmclidecode', 'clstrwatchconsumermanager', 'mmfsctl', 'mmpsnap', 'mmccrnv', 'perf.snap.py', 'mmcespnfsip', 'mmnfsnodeback', 'tsimgrestore', 'mmcesuserauthckservice', 'mmchnodeclass', 'pymmcesnfslsexport.py', 'mmdelacl', 'mmumount', 'mmcrnodeclass', 'mmsysmonc', 'tspcacheevict', 'mmexecvfile', 'sshwrap', 'mmgetifconf', 'mmfs-ppc64-rh4', 'sysmon.snap.py', 'mmimgrestore', 'mmcesobjaccesslinkfset', 'mmchecksubsys', 'mmcesop', 'tspmon', 'mmdefedquota', 'mmdelsnapshot', 'mmreclaimspace', 'mmsysmoncontrol', 'tsspectrumdiscover', 'mmyfields', 'mmchnode', 'mmrestorefs', 'mmcallhome', 'mmexportfs', 'mmcesnfsloadexport', 'tslspool34', 'mmnfsmonitor', 'mmsnmpagentd30', 'tsfindinode', 'mmfsfuncs.Linux', 'mmdumpperfdata', 'mmcesobjcrbase', 'mmdsh', 'objmetric_count.py', 'mmauditmount', 'mmcessmblsexport', 'mmdevdiscover', 'mmlsnode', 'mmautoload', 'mmcesnfscrexport', 'mmchnsd', 'mmfileid', 'mmcesnfsfuncs', 'mmcesrecovernode', 'mmlsfs', 'mmcollectdebugdata', 'tseditacl', 'tsbuhelper', 'tslinkfileset', 'tspreparedisk', 'mmrpldisk', 'mmdelnode', 'mmceslog', 'mmcrfsc', 'mmcesblockfuncs', 'mmgensymtable', 'mmfsd', 'mmnfsinstall', 'mmdspmsg', 'mmclone', 'mmchfs', 'mmlsdisk', 'mmnfstakeover', 'tsyselect', 'mmnfsup', 'mmcessmbcrexport', 'tsaddrmap', 'mmnetverify', 'mmchpool', 'msgqueue.snap.py', 'mmcesobjlscfg', 'tsrestorefileset', 'mmbuildgpl', 'mmsmbman', 'tsfindname', 'mmcesloadmonitor', 'mmcesobjaccess', 'mmaddcallback', 'mmcesobjpolicyfuncs', 'mmcessmbdelexport', 'msgqueueDaemonManager', 'core.snap.py', 'tsgskkm', 'mmauth', 'mmedquota', 'mmshutdown', 'tsdbmemleakparse', 'mmadquery', 'mmsdrcli', 'mmccr', 'mmcesobjchstoragepolicy', 'mmcesnfschcfg', 'tswatchmonitor', 'mmmigratefs', 'mmputacl', 'mmlscluster', 'commonsnap.py', 'mmcesservice', 'mmadddisk', 'tslsmgr', 'tssbrindex', 'mmafmlocal', 'mmlsperfdata', 'mmnfsuninstall', 'mmcmi', 'mmcesobjs3', 'tspcachescan', 'kdump-4.14.0-115.14.1.el7a.ppc64le', 'mmlsnsd', 'mmchcluster', 'mmunmount', 'mmnfsquorumloss', 'mmcesnetdeladdress', 'mmlsquota', 'mmces', 'pymmcesnfsfuncs.py', 'tsputacl', 'mmchqos', 'tsprshowfence', 'gpfsrunlevel', 'mmimgbackup', 'mmsdrrestore', 'tsqosnice', 'mmsdrserv', 'mmmsgqueue', 'mmcesmmcdelexport', 'mmlinkfileset', 'mmrestoreconfig', 'mmdelnodeclass', 'mmsmbfuncs', 'mmcesobjcfgman', 'mmfixcfg', 'mmcesnfslsexport', 'tsdbmemleak', 'mmaudit', 'mmcesnfslscfg', 'mmsmbsupportedoptions', 'mmafmconfig', 'mmlscallback', 'mmlsmgr', 'tsbackup', 'mmcesminfuncs', 'mmfsmount', 'mmcesmmcchexport', 'tsrestripefile', 'kdump', 'mmimportfs', 'mmcesobjcrring', 'mmnfs', 'mmcommon', 'mmcesnetmvaddress', 'mmsnmpagentd', 'mmcesobjfuncs', 'gui.callhome.py', 'tsbackup33', 'lxtrace', 'mmsdrfsdef', 'mmsmb', 'mmobj', 'tsprclear', 'mmceshdfsfuncs', 'mmcesnetworkmonitor', 'tspcacheutil', 'mmqos', 'mmlspolicy', 'mmrestripefs', 'mmcessmbfuncs', 'mmaddnode', 'mmblock', 'mmcrfs', 'mmmount', 'tsprreadres', 'mmnsddiscover', 'mmprotocoltrace', 'mmglobfuncs', 'tsprreadkeys', 'mmnfsdown', 'gpfs.snap', 'object.snap.py', 'mmcesnetaddaddress', 'mmcesobjchcfg', 'mmrsh', 'mmcesobjmr', 'mmeditacl', 'auditConsumerManager', 'mmlsconfig', 'mmsync', 'mmgetacl', 'mmcesuserauthrmservice', 'mmhealth', 'tsdelacl', 'mmremote', 'mmpercentencode', 'mmcloudfuncs', 'daemonize', 'mmcesnfschexport', 'tsclone', 'callhome.snap.py', 'clstrwatchreplaymanager', 'tsnetverify', 'mmstartup', 'mmcachectl', 'mmgskkm', 'mmdefragfs', 'mmsnapdir', 'tsapolicy', 'mmrcmd', 'mmexpelnode', 'mmsdrquery', 'ece.callhome.py', 'mmchdisk', 'mmcesnetdown', 'mmlslicense', 'mmrestripefile', 'mmcrfileset', 'mmnfscleanup', 'mmlogmsg', 'mmcessmbexportacl', 'mmchlicense', 'mmsetrcmd', 'tsclwatchrules', 'mmdynamicmap', 'tssetquota', 'tsprreserve', 'wftopics', 'mmvaryonvg', 'mmsnmpagentd10', 'mmbackupconfig', 'mmdefquotaon', 'mmlsattr', 'mmcesfuncs', 'mmfsadm', 'mmcesmmccrexport', 'runmmfs', 'mmafmcmd', 'ccrrestore', 'mmunlinkfileset', 'basicsnap.py', 'mmafmhomeconfig', 'auth.snap.py', 'fab3.snap.py', 'mmuserauth', 'object.callhome.py', 'mmlogsort', 'mmdf', 'mmcesobjcrstoragepolicy', 'mmdefquotaoff', 'mmtracectl', 'mmdump', 'tsprquery', 'mmfsenv', 'mmfsfuncs', 'mmrepquota', 'mmcesdr', 'mmcesnode', 'tslsquota', 'mmdsm', 'mmdelnsd', 'mmnfsinit', 'mmcrsnapshot', 'mmlockf', 'mmcesauthfuncs', 'network.callhome.py', 'mmglobfuncs.Linux', 'tsprinquiry', 'nfs.snap.py', 'mmcesnetlsaddress', 'mmapplypolicy', 'mmdumpkthreads', 'tswatchgpfsconduit', 'mmcessmbchconfig', 'perfmon.callhome.py', 'mmauditpreunmount', 'mmrcp', 'scpwrap', 'mmremotefs', 'tsunlinkfileset', 'mmcrcluster', 'mmnfspreunmount', 'mmcessmbchexport', 'tsauditconsumer', 'mmchattr', 'mmdeldisk', 'mmfsck', 'smb.snap.py', 'mmcesobjdepstoragepolicy', 'mmcheckquota', 'mmprodname', 'mmdelfs', 'mmcallhremote', 'mmgetstate', 'mmcesuserauthlsservice', 'mmcesnetup', 'mmremotecluster', 'tsstarthelper', 'mmcloudgateway', 'mmgetconfdata', 'tschpolicy', 'mmchmgr', 'mmcesnetchaddress', 'mmsmbvalidoptions', 'mmchfileset', 'mmwatch', 'tsprregister', 'mmstartpolicy', 'hadoop.snap.py', 'mmquotaoff', 'mmcesmonitor', 'mmquotaon', 'msgqueueservicesmonitormanager', 'mmlspool', 'mmlsmount', 'mmccrmonitor', 'mmbackup', 'mmlsnodeclass', 'lxtrace-4.14.0-115.14.1.el7a.ppc64le', 'mmrefresh', 'mmnfsrecovernode', 'mmpercentdecode', 'wftopichk', 'tspcachesnapdiff', 'mmdiag', 'mmlssnapshot', 'mmcesobjlsstoragepolicy', 'mmafmctl', 'mmstatdcallout', 'mmksh', 'sshscpwrap'] Path provided by --with-executables-search-path ['win32fe.exe', 'win32feutils.dll'] child config.packages.c2html 0.006666 ================================================================================ TEST alternateConfigureLibrary from config.packages.boost(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.boost(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.boost 0.000976 ================================================================================ TEST alternateConfigureLibrary from config.packages.silo(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.silo(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.silo 0.000956 ================================================================================ TEST alternateConfigureLibrary from config.packages.Random123(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Random123(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Random123 0.000952 ================================================================================ TEST alternateConfigureLibrary from config.packages.PARTY(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.PARTY(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.PARTY 0.000934 ================================================================================ TEST alternateConfigureLibrary from config.packages.Matlab(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Matlab(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Matlab 0.000726 ================================================================================ TEST alternateConfigureLibrary from config.packages.MatlabEngine(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.MatlabEngine(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.MatlabEngine 0.000809 ================================================================================ TEST alternateConfigureLibrary from config.packages.Mathematica(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Mathematica(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Mathematica 0.000811 ================================================================================ TEST checkDependencies from config.packages.regex(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.regex(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.regex(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:868) TESTING: configureLibrary from config.packages.regex(config/BuildSystem/config/package.py:868) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional regex Checking for library in Compiler specific search REGEX: [] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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 [regexec regcomp regfree] in library [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char regexec(); static void _check_regexec() { regexec(); } char regcomp(); static void _check_regcomp() { regcomp(); } char regfree(); static void _check_regfree() { regfree(); } int main() { _check_regexec(); _check_regcomp(); _check_regfree();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Checking for optional headers [] in Compiler specific search REGEX: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in [] Found header files [] in [] Checking for headers ['regex.h'] in Compiler specific search REGEX: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['regex.h'] in [] Checking include with compiler flags var CPPFLAGS [] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['regex.h'] in [] ================================================================================ TEST checkVersion from config.packages.regex(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.regex(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.regex(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.regex(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.regex 0.432709 ================================================================================ TEST alternateConfigureLibrary from config.packages.opengl(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.opengl(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.opengl 0.001063 ================================================================================ TEST alternateConfigureLibrary from config.packages.glut(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.glut(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.glut 0.000837 ================================================================================ TEST alternateConfigureLibrary from config.packages.CoDiPack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.CoDiPack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.CoDiPack 0.000998 ================================================================================ TEST alternateConfigureLibrary from config.packages.adblaslapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.adblaslapack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.adblaslapack 0.000959 ================================================================================ TEST checkDependencies from config.packages.cuda(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.cuda(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.cuda(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/cuda.py:76) TESTING: configureLibrary from config.packages.cuda(config/BuildSystem/config/packages/cuda.py:76) ================================================================================== Checking for a functional cuda All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.cuda Checking for program /sw/sources/lsf-tools/2.0/summit/bin/nvcc...not found Checking for program /sw/summit/xalt/1.2.0/bin/nvcc...not found Checking for program /sw/summit/forge/20.0.1/bin/nvcc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/nvcc...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/nvcc...not found Checking for program /sw/summit/gcc/6.4.0/bin/nvcc...not found Checking for program /sw/summit/cuda/10.1.243/bin/nvcc...found Defined make macro "SYSTEMNVCC" to "/sw/summit/cuda/10.1.243/bin/nvcc" CUDA: DirPath not found.. skipping: /sw/summit/cuda/10.1.243/lib Checking for library in Package specific search directory CUDA: ['/sw/summit/cuda/10.1.243/lib64/libcufft.a', 'libcublas.a', 'libcudart.a', 'libcusparse.a', 'libcusolver.a', 'libcuda.a'] Contents: ['rpm', 'LICENSE', 'README', 'bin', 'compat', 'doc', 'extras', 'include', 'lib64', 'libnsight', 'libnvvp', 'nsightee_plugins', 'nvml', 'nvvm', 'samples', 'share', 'targets', 'tools', 'version.txt', 'nsight-systems', 'nsight-compute'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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 [cublasInit cufftDestroy cuInit] in library ['/sw/summit/cuda/10.1.243/lib64/libcufft.a', 'libcublas.a', 'libcudart.a', 'libcusparse.a', 'libcusolver.a', 'libcuda.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char cublasInit(); static void _check_cublasInit() { cublasInit(); } char cufftDestroy(); static void _check_cufftDestroy() { cufftDestroy(); } char cuInit(); static void _check_cuInit() { cuInit(); } int main() { _check_cublasInit(); _check_cufftDestroy(); _check_cuInit();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda -lstdc++ -ldl Defined "HAVE_LIBCUFFT" to "1" Defined "HAVE_LIBCUBLAS" to "1" Defined "HAVE_LIBCUDART" to "1" Defined "HAVE_LIBCUSPARSE" to "1" Defined "HAVE_LIBCUSOLVER" to "1" Defined "HAVE_LIBCUDA" to "1" Checking for optional headers [] in Package specific search directory CUDA: ['/sw/summit/cuda/10.1.243/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/sw/summit/cuda/10.1.243/include'] Found header files [] in ['/sw/summit/cuda/10.1.243/include'] Checking for headers ['cublas.h', 'cufft.h', 'cusparse.h', 'cusolverDn.h', 'thrust/version.h'] in Package specific search directory CUDA: ['/sw/summit/cuda/10.1.243/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['cublas.h', 'cufft.h', 'cusparse.h', 'cusolverDn.h', 'thrust/version.h'] in ['/sw/summit/cuda/10.1.243/include'] Checking include with compiler flags var CPPFLAGS ['/sw/summit/cuda/10.1.243/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/sw/summit/cuda/10.1.243/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Checking include with compiler flags var CPPFLAGS ['/sw/summit/cuda/10.1.243/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/sw/summit/cuda/10.1.243/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Checking include with compiler flags var CPPFLAGS ['/sw/summit/cuda/10.1.243/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/sw/summit/cuda/10.1.243/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Checking include with compiler flags var CPPFLAGS ['/sw/summit/cuda/10.1.243/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/sw/summit/cuda/10.1.243/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Checking include with compiler flags var CPPFLAGS ['/sw/summit/cuda/10.1.243/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.MPI -I/sw/summit/cuda/10.1.243/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['cublas.h', 'cufft.h', 'cusparse.h', 'cusolverDn.h', 'thrust/version.h'] in ['/sw/summit/cuda/10.1.243/include'] Checking for size of type: teststruct Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -O2 -g -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.types/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include typedef struct {double a; int b;} teststruct; char assert_sizeof[(sizeof(teststruct)==16)*2-1]; Checking for size of type: teststruct Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.types/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include typedef struct {double a; int b;} teststruct; char assert_sizeof[(sizeof(teststruct)==16)*2-1]; Checking if sizeof(void*) in CUDA is the same as with regular compiler Checking for size of type: void * Running Executable WITHOUT threads to time it out Executing: nvcc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -O2 -g -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -Wno-deprecated-gpu-targets /tmp/petsc-1iOaOB/config.types/conftest.cu Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include char assert_sizeof[(sizeof(void *)==8)*2-1]; Defined "HAVE_CUDA" to "1" ================================================================================ TEST checkVersion from config.packages.cuda(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.cuda(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "cuda.h" ;petscpkgver(CUDA_VERSION); Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.MPI -I/sw/summit/cuda/10.1.243/include /tmp/petsc-1iOaOB/config.packages.cuda/conftest.c For cuda need 7.5 <= 10.1 <= ================================================================================ TEST checkSharedLibrary from config.packages.cuda(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.cuda(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.cuda 2.319551 child config.packages.cxxlibs 0.000015 ================================================================================ TEST alternateConfigureLibrary from config.packages.ADOLC(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ADOLC(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ADOLC 0.001148 ================================================================================ TEST locateCMake from config.packages.cmake(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/cmake.py:39) TESTING: locateCMake from config.packages.cmake(config/BuildSystem/config/packages/cmake.py:39) Looking for default CMake executable Checking for program /sw/sources/lsf-tools/2.0/summit/bin/cmake...not found Checking for program /sw/summit/xalt/1.2.0/bin/cmake...not found Checking for program /sw/summit/forge/20.0.1/bin/cmake...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/cmake...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/cmake...found Defined make macro "CMAKE" to "/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/cmake" Looking for default CTest executable Checking for program /sw/sources/lsf-tools/2.0/summit/bin/ctest...not found Checking for program /sw/summit/xalt/1.2.0/bin/ctest...not found Checking for program /sw/summit/forge/20.0.1/bin/ctest...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/bin/ctest...not found Checking for program /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ctest...found Defined make macro "CTEST" to "/autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ctest" Running Executable WITHOUT threads to time it out Executing: /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/cmake --version stdout: cmake version 3.15.2 CMake suite maintained and supported by Kitware (kitware.com/cmake). cmake version found 3.15.2 child config.packages.cmake 0.014441 ================================================================================ TEST alternateConfigureLibrary from config.packages.googletest(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.googletest(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.googletest 0.001149 ================================================================================ TEST alternateConfigureLibrary from config.packages.unittestcpp(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.unittestcpp(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.unittestcpp 0.000978 ================================================================================ TEST alternateConfigureLibrary from config.packages.eigen(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.eigen(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.eigen 0.000974 ================================================================================ TEST alternateConfigureLibrary from config.packages.szlib(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.szlib(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.szlib 0.000950 ================================================================================ TEST checkDependencies from config.packages.zlib(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.zlib(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.zlib(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:868) TESTING: configureLibrary from config.packages.zlib(config/BuildSystem/config/package.py:868) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional zlib Looking for ZLIB at git.zlib, hg.zlib or a directory starting with ['zlib'] Found a copy of ZLIB in zlib-1.2.11 Makefile /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.conf.zlib has correct checksum Do not need to rebuild ZLIB Checking for library in Download ZLIB: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libz.a'] Contents: ['include', 'bin', 'etc', 'externalpackages', 'lib', 'share'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [compress uncompress] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libz.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char compress(); static void _check_compress() { compress(); } char uncompress(); static void _check_uncompress() { uncompress(); } int main() { _check_compress(); _check_uncompress();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lz -lstdc++ -ldl Defined "HAVE_LIBZ" to "1" Checking for optional headers [] in Download ZLIB: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Found header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for headers ['zlib.h'] in Download ZLIB: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['zlib.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking include with compiler flags var CPPFLAGS ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.headers -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['zlib.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkVersion from config.packages.zlib(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.zlib(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.zlib(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.zlib(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.zlib 0.441965 child config.packages.mathlib 0.000023 ================================================================================ TEST alternateConfigureLibrary from config.packages.tetgen(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.tetgen(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.tetgen 0.001207 ================================================================================ TEST alternateConfigureLibrary from config.packages.tchem(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.tchem(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.tchem 0.000959 ================================================================================ TEST alternateConfigureLibrary from config.packages.saws(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.saws(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.saws 0.000953 ================================================================================ TEST alternateConfigureLibrary from config.packages.libpng(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.libpng(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.libpng 0.000952 ================================================================================ TEST alternateConfigureLibrary from config.packages.combblas(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.combblas(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.combblas 0.000948 ================================================================================ TEST checkDependencies from config.packages.metis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.metis(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.metis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/metis.py:49) TESTING: configureLibrary from config.packages.metis(config/BuildSystem/config/packages/metis.py:49) ================================================================================== Checking for a functional metis Looking for METIS at git.metis, hg.metis or a directory starting with ['petsc-pkg-metis'] Found a copy of METIS in git.metis Running Executable WITHOUT threads to time it out Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Running Executable WITHOUT threads to time it out Executing: ['git', 'cat-file', '-e', 'v5.1.0-p8^{commit}'] Running Executable WITHOUT threads to time it out Executing: ['git', 'rev-parse', 'v5.1.0-p8'] stdout: ca7a59e6283f608d3e0d8a9d500838afb7f4339a Running Executable WITHOUT threads to time it out Executing: ['git', '-c', 'user.name=petsc-configure', '-c', 'user.email=petsc@configure', 'stash'] stdout: No local changes to save Running Executable WITHOUT threads to time it out Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing metis.petscconf Removing pkg.gitcommit Running Executable WITHOUT threads to time it out Executing: ['git', 'checkout', '-f', 'ca7a59e6283f608d3e0d8a9d500838afb7f4339a'] Makefile /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.conf.metis has correct checksum Commit file /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.gitcommit.metis has correct checksum Do not need to rebuild METIS Checking for library in Download METIS: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libmetis.a'] Contents: ['include', 'bin', 'etc', 'externalpackages', 'lib', 'share'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [METIS_PartGraphKway] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libmetis.a'] ['libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char METIS_PartGraphKway(); static void _check_METIS_PartGraphKway() { METIS_PartGraphKway(); } int main() { _check_METIS_PartGraphKway();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lmetis -lm -lstdc++ -ldl Defined "HAVE_LIBMETIS" to "1" Checking for optional headers [] in Download METIS: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Found header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for headers ['metis.h'] in Download METIS: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['metis.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking include with compiler flags var CPPFLAGS ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.headers -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['metis.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.metis Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.metis/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.packages.metis -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.metis/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.metis/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.metis/conftest.c:8:7: warning: extra tokens at end of #endif directive [-Wendif-labels] #endif; ^ Source: #include "confdefs.h" #include "conffix.h" #include "metis.h" int main() { #if (IDXTYPEWIDTH != 32) #error incompatible IDXTYPEWIDTH #endif; return 0; } ================================================================================ TEST checkVersion from config.packages.metis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.metis(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "metis.h" ;petscpkgver(METIS_VER_MAJOR.METIS_VER_MINOR.METIS_VER_SUBMINOR); Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.metis -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.metis/conftest.c For metis need <= 5.1.0 <= ================================================================================ TEST checkSharedLibrary from config.packages.metis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.metis(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.metis 0.626460 ================================================================================ TEST alternateConfigureLibrary from config.packages.pragmatic(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.pragmatic(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.pragmatic 0.001259 ================================================================================ TEST checkDependencies from config.packages.parmetis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.parmetis(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.parmetis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/parmetis.py:41) TESTING: configureLibrary from config.packages.parmetis(config/BuildSystem/config/packages/parmetis.py:41) ================================================================================== Checking for a functional parmetis Looking for PARMETIS at git.parmetis, hg.parmetis or a directory starting with ['petsc-pkg-parmetis'] Found a copy of PARMETIS in git.parmetis Running Executable WITHOUT threads to time it out Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Running Executable WITHOUT threads to time it out Executing: ['git', 'cat-file', '-e', 'v4.0.3-p6^{commit}'] Running Executable WITHOUT threads to time it out Executing: ['git', 'rev-parse', 'v4.0.3-p6'] stdout: 475d8facbb324527c205f1f78a7c90bd160bddcd Running Executable WITHOUT threads to time it out Executing: ['git', '-c', 'user.name=petsc-configure', '-c', 'user.email=petsc@configure', 'stash'] stdout: No local changes to save Running Executable WITHOUT threads to time it out Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing parmetis.petscconf Removing pkg.gitcommit Running Executable WITHOUT threads to time it out Executing: ['git', 'checkout', '-f', '475d8facbb324527c205f1f78a7c90bd160bddcd'] Makefile /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.conf.parmetis has correct checksum Commit file /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.gitcommit.parmetis has correct checksum Do not need to rebuild PARMETIS Checking for library in Download PARMETIS: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libparmetis.a'] Contents: ['include', 'bin', 'etc', 'externalpackages', 'lib', 'share'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [ParMETIS_V3_PartKway] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libparmetis.a'] ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libmetis.a', 'libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ParMETIS_V3_PartKway(); static void _check_ParMETIS_V3_PartKway() { ParMETIS_V3_PartKway(); } int main() { _check_ParMETIS_V3_PartKway();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lparmetis -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lmetis -lm -lstdc++ -ldl Defined "HAVE_LIBPARMETIS" to "1" Checking for optional headers [] in Download PARMETIS: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Found header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for headers ['parmetis.h'] in Download PARMETIS: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['parmetis.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking include with compiler flags var CPPFLAGS ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include', '/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.headers -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['parmetis.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for functions [ParMETIS_ComputeVertexSeparator] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libparmetis.a'] ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libmetis.a', 'libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ParMETIS_ComputeVertexSeparator(); static void _check_ParMETIS_ComputeVertexSeparator() { ParMETIS_ComputeVertexSeparator(); } int main() { _check_ParMETIS_ComputeVertexSeparator();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lparmetis -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lmetis -lm -lstdc++ -ldl Defined "HAVE_LIBPARMETIS" to "1" ================================================================================ TEST checkVersion from config.packages.parmetis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.parmetis(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.parmetis Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "parmetis.h" ;petscpkgver(PARMETIS_MAJOR_VERSION.PARMETIS_MINOR_VERSION.PARMETIS_SUBMINOR_VERSION); Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.parmetis/conftest.c For parmetis need <= 4.0.3 <= ================================================================================ TEST checkSharedLibrary from config.packages.parmetis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.parmetis(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.parmetis 0.993419 ================================================================================ TEST alternateConfigureLibrary from config.packages.Chaco(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Chaco(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Chaco 0.001219 Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux ================================================================================ TEST checkDependencies from config.packages.hdf5(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.hdf5(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.hdf5(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/hdf5.py:83) TESTING: configureLibrary from config.packages.hdf5(config/BuildSystem/config/packages/hdf5.py:83) ================================================================================== Checking for a functional hdf5 Looking for HDF5 at git.hdf5, hg.hdf5 or a directory starting with ['hdf5'] Found a copy of HDF5 in hdf5-1.12.0 All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.hdf5 Makefile /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.conf.hdf5 has correct checksum Do not need to rebuild HDF5 Checking for library in Download HDF5: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libhdf5_hl.a', 'libhdf5.a'] Contents: ['include', 'bin', 'etc', 'externalpackages', 'lib', 'share'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names Checking for functions [H5T_init] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libhdf5_hl.a', 'libhdf5.a'] ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libz.a', 'libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char H5T_init(); static void _check_H5T_init() { H5T_init(); } int main() { _check_H5T_init();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lhdf5_hl -lhdf5 -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lz -lm -lstdc++ -ldl Defined "HAVE_LIBHDF5_HL" to "1" Defined "HAVE_LIBHDF5" to "1" Checking for optional headers [] in Download HDF5: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Found header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for headers ['hdf5.h'] in Download HDF5: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['hdf5.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking include with compiler flags var CPPFLAGS ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include', '/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['hdf5.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "H5pubconf.h" #if defined(H5_HAVE_ZLIB_H) foundbeast #endif Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.hdf5/conftest.c Defined "HDF5_HAVE_ZLIB" to "1" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "H5pubconf.h" #if defined(H5_HAVE_SZLIB_H) foundbeast #endif Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.hdf5/conftest.c Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "H5pubconf.h" #if defined(H5_HAVE_PARALLEL) foundbeast #endif Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.hdf5/conftest.c Defined "HDF5_HAVE_PARALLEL" to "1" ================================================================================ TEST checkVersion from config.packages.hdf5(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.hdf5(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version Preprocessing source: #include "confdefs.h" #include "conffix.h" #include "hdf5.h" ;petscpkgver(H5_VERSION); Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.packages.hdf5/conftest.c For hdf5 need 1.8 <= 1.12.0 <= ================================================================================ TEST checkSharedLibrary from config.packages.hdf5(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.hdf5(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.hdf5 0.728562 ================================================================================ TEST alternateConfigureLibrary from config.packages.med(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.med(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.med 0.001187 ================================================================================ TEST alternateConfigureLibrary from config.packages.cgns(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.cgns(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.cgns 0.000825 ================================================================================ TEST alternateConfigureLibrary from config.packages.ascem-io(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ascem-io(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ascem-io 0.000953 ================================================================================ TEST alternateConfigureLibrary from config.packages.pflotran(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.pflotran(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.pflotran 0.000963 ================================================================================ TEST alternateConfigureLibrary from config.packages.alquimia(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.alquimia(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.alquimia 0.000944 ================================================================================ TEST alternateConfigureLibrary from config.packages.SAMRAI(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.SAMRAI(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.SAMRAI 0.000942 ================================================================================ TEST alternateConfigureLibrary from config.packages.ADIOS2(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ADIOS2(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ADIOS2 0.000942 child config.packages.flibs 0.000011 ================================================================================ TEST alternateConfigureLibrary from config.packages.pnetcdf(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.pnetcdf(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.pnetcdf 0.000947 ================================================================================ TEST alternateConfigureLibrary from config.packages.netcdf(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.netcdf(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.netcdf 0.000961 ================================================================================ TEST alternateConfigureLibrary from config.packages.exodusii(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.exodusii(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.exodusii 0.000953 ================================================================================ TEST alternateConfigureLibrary from config.packages.fblaslapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.fblaslapack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.fblaslapack 0.000857 ================================================================================ TEST alternateConfigureLibrary from config.packages.X(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.X(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.X 0.000816 ================================================================================ TEST checkDependencies from config.packages.Triangle(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.Triangle(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.Triangle(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/Triangle.py:124) TESTING: configureLibrary from config.packages.Triangle(config/BuildSystem/config/packages/Triangle.py:124) ================================================================================== Checking for a functional Triangle Looking for TRIANGLE at git.triangle, hg.triangle or a directory starting with ['Triangle'] Found a copy of TRIANGLE in Triangle Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Makefile /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.conf.triangle has correct checksum Do not need to rebuild TRIANGLE Checking for library in Download TRIANGLE: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libtriangle.a'] Contents: ['include', 'bin', 'etc', 'externalpackages', 'lib', 'share'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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 [triangulate] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libtriangle.a'] ['libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char triangulate(); static void _check_triangulate() { triangulate(); } int main() { _check_triangulate();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -ltriangle -lm -lstdc++ -ldl Defined "HAVE_LIBTRIANGLE" to "1" Checking for optional headers [] in Download TRIANGLE: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Found header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for headers ['triangle.h'] in Download TRIANGLE: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['triangle.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking include with compiler flags var CPPFLAGS ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['triangle.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkVersion from config.packages.Triangle(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.Triangle(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.Triangle(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.Triangle(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.Triangle 0.444829 ================================================================================ TEST alternateConfigureLibrary from config.packages.GLVis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.GLVis(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.GLVis 0.001182 ================================================================================ TEST alternateConfigureLibrary from config.packages.hwloc(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.hwloc(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.hwloc 0.000963 ================================================================================ TEST checkDependencies from config.packages.pthread(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.pthread(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.pthread(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/pthread.py:20) TESTING: configureLibrary from config.packages.pthread(config/BuildSystem/config/packages/pthread.py:20) 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(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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 [] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char pthread_create(); static void _check_pthread_create() { pthread_create(); } int main() { _check_pthread_create();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.libraries/conftest.o -lstdc++ -ldl Checking for optional headers [] in Compiler specific search PTHREAD: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in [] Found header files [] in [] Checking for headers ['pthread.h'] in Compiler specific search PTHREAD: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['pthread.h'] in [] Checking include with compiler flags var CPPFLAGS [] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['pthread.h'] in [] All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.pthread Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.pthread/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c:6:20: warning: unused variable 'a' [-Wunused-variable] pthread_barrier_t *a; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { pthread_barrier_t *a; ; return 0; } Defined "HAVE_PTHREAD_BARRIER_T" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.pthread/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.packages.pthread -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c:6:12: warning: unused variable 'a' [-Wunused-variable] cpu_set_t *a; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { cpu_set_t *a; ; return 0; } Defined "HAVE_SCHED_CPU_SET_T" to "1" Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 /tmp/petsc-1iOaOB/config.packages.pthread/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Defined "HAVE_SYS_SYSCTL_H" to "1" ================================================================================ TEST checkVersion from config.packages.pthread(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.pthread(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.pthread(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.pthread(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.pthread 0.602585 ================================================================================ TEST alternateConfigureLibrary from config.packages.PTScotch(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.PTScotch(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.PTScotch 0.001219 ================================================================================ TEST alternateConfigureLibrary from config.packages.Zoltan(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Zoltan(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Zoltan 0.000963 ================================================================================ TEST alternateConfigureLibrary from config.packages.ADIOS(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ADIOS(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ADIOS 0.000962 ================================================================================ TEST checkDependencies from config.packages.openmp(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.openmp(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.openmp(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/openmp.py:19) TESTING: configureLibrary from config.packages.openmp(config/BuildSystem/config/packages/openmp.py:19) Checks for OpenMP compiler flags Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.openmp Preprocessing source: #include "confdefs.h" #include "conffix.h" #if defined(_OPENMP) opmv=_OPENMP #else #error "No _OPENMP macro, something is wrong with the OpenMP install" #endif Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/tmp/petsc-1iOaOB/config.packages.openmp -fopenmp /tmp/petsc-1iOaOB/config.packages.openmp/conftest.c Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added C compiler flag -fopenmp Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Preprocessing source: #include "confdefs.h" #include "conffix.h" #if !defined(_OPENMP) #error "No _OPENMP macro, something is wrong with the OpenMP install" #endif Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/tmp/petsc-1iOaOB/config.packages.openmp -fopenmp /tmp/petsc-1iOaOB/config.packages.openmp/conftest.c Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { ; return 0; } Added Cxx compiler flag -fopenmp ================================================================================== Checking for a functional openmp Not checking for library in Compiler specific search OPENMP: [] because no functions given to check for ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) Checks that the library "libName" contains "funcs", and if it does defines HAVE_LIB"libName" - libDir may be a list of directories - libName may be a list of library names No functions to check for in library [] [] Checking for optional headers [] in Compiler specific search OPENMP: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in [] Found header files [] in [] Checking for headers ['omp.h'] in Compiler specific search OPENMP: [] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['omp.h'] in [] Checking include with compiler flags var CPPFLAGS [] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/tmp/petsc-1iOaOB/config.packages.openmp -I/tmp/petsc-1iOaOB/config.headers /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['omp.h'] in [] ================================================================================ TEST checkVersion from config.packages.openmp(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.openmp(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.openmp(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.openmp(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.openmp 0.340558 ================================================================================ TEST alternateConfigureLibrary from config.packages.viennacl(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.viennacl(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.viennacl 0.001148 ================================================================================ TEST alternateConfigureLibrary from config.packages.ColPack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ColPack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ColPack 0.000972 ================================================================================ TEST alternateConfigureLibrary from config.packages.openblas(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.openblas(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.openblas 0.000958 ================================================================================ TEST alternateConfigureLibrary from config.packages.blis(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.blis(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.blis 0.000953 ================================================================================ TEST alternateConfigureLibrary from config.packages.f2cblaslapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.f2cblaslapack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.f2cblaslapack 0.000873 ================================================================================ TEST checkDependencies from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.BlasLapack(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:447) TESTING: configureLibrary from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:447) ================================================================================ Checking for BLAS and LAPACK in User specified BLAS/LAPACK library ================================================================================ TEST checkLib from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:107) TESTING: checkLib from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:107) Checking for BLAS and LAPACK symbols Checking for Fortran name mangling unchanged on BLAS/LAPACK Checking for functions [ddot] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack'] ['libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ddot(); static void _check_ddot() { ddot(); } int main() { _check_ddot();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_ddot': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `ddot' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status Checking for underscore name mangling on BLAS/LAPACK Checking for functions [ddot_] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack'] ['libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ddot_(); static void _check_ddot_() { ddot_(); } int main() { _check_ddot_();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Defined "HAVE_LIBBLAS" to "1" Defined "HAVE_LIBLAPACK" to "1" Checking for functions [dgetrs_] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack'] ['libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgetrs_(); static void _check_dgetrs_() { dgetrs_(); } int main() { _check_dgetrs_();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Defined "HAVE_LIBBLAS" to "1" Defined "HAVE_LIBLAPACK" to "1" Checking for functions [dgeev_] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack'] ['libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgeev_(); static void _check_dgeev_() { dgeev_(); } int main() { _check_dgeev_();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Defined "HAVE_LIBBLAS" to "1" Defined "HAVE_LIBLAPACK" to "1" Found underscore name mangling on BLAS/LAPACK Defined "BLASLAPACK_UNDERSCORE" to "1" ================================================================================ TEST checkMKL from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:518) TESTING: checkMKL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:518) Check for Intel MKL library Checking for functions [mkl_set_num_threads] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack', 'libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char mkl_set_num_threads(); static void _check_mkl_set_num_threads() { mkl_set_num_threads(); } int main() { _check_mkl_set_num_threads();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_mkl_set_num_threads': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `mkl_set_num_threads' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status ================================================================================ TEST checkESSL from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:556) TESTING: checkESSL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:556) Check for the IBM ESSL library Checking for functions [iessl] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack', 'libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char iessl(); static void _check_iessl() { iessl(); } int main() { _check_iessl();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_iessl': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `iessl' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status ================================================================================ TEST checkPESSL from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:564) TESTING: checkPESSL from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:564) Check for the IBM PESSL library - and error out - if used instead of ESSL Checking for functions [ipessl] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack', 'libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char ipessl(); static void _check_ipessl() { ipessl(); } int main() { _check_ipessl();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Possible ERROR while running linker: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.o: In function `_check_ipessl': /tmp/petsc-1iOaOB/config.libraries/conftest.c:5: undefined reference to `ipessl' /usr/bin/ld: link errors found, deleting executable `/tmp/petsc-1iOaOB/config.libraries/conftest' collect2: error: ld returned 1 exit status ================================================================================ TEST checkMissing from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:589) TESTING: checkMissing from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:589) Check for missing LAPACK routines Checking for functions [dgelss_ dgerfs_ dgges_ dhgeqz_ dhseqr_ dorgqr_ dormqr_ dstebz_ dstegr_ dstein_ dsteqr_ dsytri_ dtgsen_ dtrsen_ dtrtrs_] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack'] ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack', 'libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char dgelss_(); static void _check_dgelss_() { dgelss_(); } char dgerfs_(); static void _check_dgerfs_() { dgerfs_(); } char dgges_(); static void _check_dgges_() { dgges_(); } char dhgeqz_(); static void _check_dhgeqz_() { dhgeqz_(); } char dhseqr_(); static void _check_dhseqr_() { dhseqr_(); } char dorgqr_(); static void _check_dorgqr_() { dorgqr_(); } char dormqr_(); static void _check_dormqr_() { dormqr_(); } char dstebz_(); static void _check_dstebz_() { dstebz_(); } char dstegr_(); static void _check_dstegr_() { dstegr_(); } char dstein_(); static void _check_dstein_() { dstein_(); } char dsteqr_(); static void _check_dsteqr_() { dsteqr_(); } char dsytri_(); static void _check_dsytri_() { dsytri_(); } char dtgsen_(); static void _check_dtgsen_() { dtgsen_(); } char dtrsen_(); static void _check_dtrsen_() { dtrsen_(); } char dtrtrs_(); static void _check_dtrtrs_() { dtrtrs_(); } int main() { _check_dgelss_(); _check_dgerfs_(); _check_dgges_(); _check_dhgeqz_(); _check_dhseqr_(); _check_dorgqr_(); _check_dormqr_(); _check_dstebz_(); _check_dstegr_(); _check_dstein_(); _check_dsteqr_(); _check_dsytri_(); _check_dtgsen_(); _check_dtrsen_(); _check_dtrtrs_();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Defined "HAVE_LIBBLAS" to "1" Defined "HAVE_LIBLAPACK" to "1" ================================================================================ TEST checklsame from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:605) TESTING: checklsame from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:605) Do the BLAS/LAPACK libraries have a valid lsame() function with correct binding. Checking for functions [lsame_] in library ['-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack', 'libm.a'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char lsame_(); static void _check_lsame_() { lsame_(); } int main() { _check_lsame_();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Defined "HAVE_LIBBLAS" to "1" Defined "HAVE_LIBLAPACK" to "1" Defined "HAVE_LIBM" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" char *dgeev_(void); char* testroutine(void){return dgeev_(); }Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" char *dgeev_(void); char* testroutine(void){return dgeev_(); }Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.setCompilers/libconftest.so -fopenmp -shared -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.setCompilers/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lblas -llapack -lm -lstdc++ -ldl ================================================================================ TEST checkRuntimeIssues from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/BlasLapack.py:664) TESTING: checkRuntimeIssues from config.packages.BlasLapack(config/BuildSystem/config/packages/BlasLapack.py:664) Determines if BLAS/LAPACK routines use 32 or 64 bit integers All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.BlasLapack Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #include #include #include #include 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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest.o -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Testing executable /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest to see if it can be run Executing: /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest Running Executable with threads to time it out at 60 Executing: /tmp/petsc-1iOaOB/config.packages.BlasLapack/conftest Checking for 64 bit blas indices: result 0 ================================================================================ TEST checkVersion from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.BlasLapack(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.BlasLapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.BlasLapack(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.BlasLapack 4.354264 ================================================================================ TEST alternateConfigureLibrary from config.packages.sundials(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.sundials(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.sundials 0.001018 ================================================================================ TEST alternateConfigureLibrary from config.packages.spai(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.spai(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.spai 0.001069 ================================================================================ TEST alternateConfigureLibrary from config.packages.pARMS(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.pARMS(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.pARMS 0.000959 ================================================================================ TEST checkDependencies from config.packages.p4est(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.p4est(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.p4est(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:868) TESTING: configureLibrary from config.packages.p4est(config/BuildSystem/config/package.py:868) Find an installation and check if it can work with PETSc ================================================================================== Checking for a functional p4est Looking for P4EST at git.p4est, hg.p4est or a directory starting with ['p4est'] Found a copy of P4EST in git.p4est Running Executable WITHOUT threads to time it out Executing: ['git', 'rev-parse', '--git-dir'] stdout: .git Running Executable WITHOUT threads to time it out Executing: ['git', 'cat-file', '-e', '1727693b446ee0c987be701320db0cd5de617cfc^{commit}'] Running Executable WITHOUT threads to time it out Executing: ['git', 'rev-parse', '1727693b446ee0c987be701320db0cd5de617cfc'] stdout: 1727693b446ee0c987be701320db0cd5de617cfc Running Executable WITHOUT threads to time it out Executing: ['git', '-c', 'user.name=petsc-configure', '-c', 'user.email=petsc@configure', 'stash'] stdout: No local changes to save Running Executable WITHOUT threads to time it out Executing: ['git', 'clean', '-f', '-d', '-x'] stdout: Removing Makefile.in Removing aclocal.m4 Removing autom4te.cache/ Removing build-aux/ar-lib Removing build-aux/compile Removing build-aux/config.guess Removing build-aux/config.sub Removing build-aux/depcomp Removing build-aux/install-sh Removing build-aux/ltmain.sh Removing build-aux/missing Removing build-aux/test-driver Removing config/libtool.m4 Removing config/ltoptions.m4 Removing config/ltsugar.m4 Removing config/ltversion.m4 Removing config/lt~obsolete.m4 Removing configure Removing p4est.petscconf Removing pkg.gitcommit Removing src/pre_config.h.in Running Executable WITHOUT threads to time it out Executing: ['git', 'checkout', '-f', '1727693b446ee0c987be701320db0cd5de617cfc'] Looking for P4EST at git.p4est, hg.p4est or a directory starting with ['p4est'] Found a copy of P4EST in git.p4est Running Executable WITHOUT threads to time it out Executing: ['git', 'submodule', 'update', '--init'] =============================================================================== Trying to bootstrap p4est using autotools; this may take several minutes =============================================================================== Running Executable WITHOUT threads to time it out Executing: ./bootstrap stdout: Running bootstrap in subdirectory sc --- This is the bootstrap script for libsc --- It is NOT required to run bootstrap to build from a tar.gz archive Development requires a libtool recent enough to contain LT_INIT (2.2 works) Current directory is /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-cuda-omp-2d/externalpackages/git.p4est/sc --- This is the bootstrap script for p4est --- Current directory is /gpfs/alpine/csc314/scratch/adams/petsc/arch-summit-opt-gnu-cuda-omp-2d/externalpackages/git.p4est libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, `build-aux'. libtoolize: copying file `build-aux/config.guess' libtoolize: copying file `build-aux/config.sub' libtoolize: copying file `build-aux/install-sh' libtoolize: copying file `build-aux/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `config'. libtoolize: copying file `config/libtool.m4' libtoolize: copying file `config/ltoptions.m4' libtoolize: copying file `config/ltsugar.m4' libtoolize: copying file `config/ltversion.m4' libtoolize: copying file `config/lt~obsolete.m4' All intermediate test results are stored in /tmp/petsc-1iOaOB/config.packages.p4est Makefile /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.conf.p4est has correct checksum Commit file /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/pkg.gitcommit.p4est has correct checksum Do not need to rebuild P4EST Checking for library in Download P4EST: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libp4est.a', 'libsc.a'] Contents: ['include', 'bin', 'etc', 'externalpackages', 'lib', 'share'] ================================================================================ TEST check from config.libraries(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/libraries.py:157) TESTING: check from config.libraries(config/BuildSystem/config/libraries.py:157) 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 [p4est_init] in library ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libp4est.a', 'libsc.a'] ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib/libz.a', '-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64', '-lblas', '-llapack', 'libm.a'] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ char p4est_init(); static void _check_p4est_init() { p4est_init(); } int main() { _check_p4est_init();; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/config.libraries/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.o -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lp4est -lsc -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lz -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack -lm -lstdc++ -ldl Defined "HAVE_LIBP4EST" to "1" Defined "HAVE_LIBSC" to "1" Checking for optional headers [] in Download P4EST: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Found header files [] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking for headers ['p4est_bits.h'] in Download P4EST: ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkInclude from config.headers(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/headers.py:86) TESTING: checkInclude from config.headers(config/BuildSystem/config/headers.py:86) Checks if a particular include file can be found along particular include paths Checking for header files ['p4est_bits.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Checking include with compiler flags var CPPFLAGS ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include', '/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] Preprocessing source: #include "confdefs.h" #include "conffix.h" #include Running Executable WITHOUT threads to time it out Executing: mpicc -E -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.cuda -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.parmetis -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.packages.hdf5 -I/tmp/petsc-1iOaOB/config.packages.openmp -I/tmp/petsc-1iOaOB/config.headers -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include /tmp/petsc-1iOaOB/config.headers/conftest.c Preprocess stderr before filtering:: Preprocess stderr after filtering:: Found header files ['p4est_bits.h'] in ['/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include'] ================================================================================ TEST checkVersion from config.packages.p4est(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.p4est(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.p4est(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.p4est(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.p4est 20.122561 ================================================================================ TEST checkDependencies from config.packages.mkl_sparse_optimize(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.mkl_sparse_optimize(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/mkl_sparse_optimize.py:48) TESTING: configureLibrary from config.packages.mkl_sparse_optimize(config/BuildSystem/config/packages/mkl_sparse_optimize.py:48) ================================================================================ TEST checkVersion from config.packages.mkl_sparse_optimize(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.mkl_sparse_optimize(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.mkl_sparse_optimize(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.mkl_sparse_optimize 0.001447 ================================================================================ TEST checkDependencies from config.packages.mkl_sparse(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:843) TESTING: checkDependencies from config.packages.mkl_sparse(config/BuildSystem/config/package.py:843) ================================================================================ TEST configureLibrary from config.packages.mkl_sparse(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/mkl_sparse.py:21) TESTING: configureLibrary from config.packages.mkl_sparse(config/BuildSystem/config/packages/mkl_sparse.py:21) ================================================================================ TEST checkVersion from config.packages.mkl_sparse(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:992) TESTING: checkVersion from config.packages.mkl_sparse(config/BuildSystem/config/package.py:992) Uses self.version, self.minversion, self.maxversion, self.versionname, and self.versioninclude to determine if package has required version ================================================================================ TEST checkSharedLibrary from config.packages.mkl_sparse(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:926) TESTING: checkSharedLibrary from config.packages.mkl_sparse(config/BuildSystem/config/package.py:926) By default we don't care about checking if the library is shared child config.packages.mkl_sparse 0.001118 ================================================================================ TEST alternateConfigureLibrary from config.packages.mkl_cpardiso(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.mkl_cpardiso(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.mkl_cpardiso 0.000947 ================================================================================ TEST alternateConfigureLibrary from config.packages.hpddm(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/hpddm.py:120) TESTING: alternateConfigureLibrary from config.packages.hpddm(config/BuildSystem/config/packages/hpddm.py:120) Defined make rule "hpddm-build" with dependencies "" and code [] Defined make rule "hpddm-install" with dependencies "" and code [] child config.packages.hpddm 0.001299 ================================================================================ TEST alternateConfigureLibrary from config.packages.fftw(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.fftw(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.fftw 0.000967 ================================================================================ TEST alternateConfigureLibrary from config.packages.elemental(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.elemental(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.elemental 0.000956 ================================================================================ TEST alternateConfigureLibrary from config.packages.ml(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.ml(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.ml 0.001046 ================================================================================ TEST alternateConfigureLibrary from config.packages.mkl_pardiso(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.mkl_pardiso(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.mkl_pardiso 0.000890 ================================================================================ TEST alternateConfigureLibrary from config.packages.SuperLU_DIST(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.SuperLU_DIST(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.SuperLU_DIST 0.001039 ================================================================================ TEST alternateConfigureLibrary from config.packages.SuperLU(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.SuperLU(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.SuperLU 0.000948 Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux ================================================================================ TEST alternateConfigureLibrary from config.packages.SuiteSparse(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.SuiteSparse(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.SuiteSparse 0.006480 ================================================================================ TEST alternateConfigureLibrary from config.packages.PaStiX(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.PaStiX(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.PaStiX 0.000969 ================================================================================ TEST alternateConfigureLibrary from config.packages.scalapack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.scalapack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.scalapack 0.000955 ================================================================================ TEST alternateConfigureLibrary from config.packages.strumpack(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.strumpack(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.strumpack 0.001038 ================================================================================ TEST alternateConfigureLibrary from config.packages.MUMPS(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.MUMPS(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.MUMPS 0.001198 ================================================================================ TEST alternateConfigureLibrary from config.packages.MOAB(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.MOAB(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.MOAB 0.000949 ================================================================================ TEST alternateConfigureLibrary from config.packages.Chombo(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Chombo(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Chombo 0.001028 ================================================================================ TEST alternateConfigureLibrary from config.packages.hypre(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.hypre(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.hypre 0.001048 ================================================================================ TEST alternateConfigureLibrary from config.packages.Trilinos(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.Trilinos(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.Trilinos 0.000950 ================================================================================ TEST alternateConfigureLibrary from config.packages.xSDKTrilinos(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.xSDKTrilinos(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.xSDKTrilinos 0.000939 ================================================================================ TEST alternateConfigureLibrary from config.packages.mstk(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.mstk(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.mstk 0.000953 ================================================================================ TEST alternateConfigureLibrary from config.packages.amanzi(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/package.py:930) TESTING: alternateConfigureLibrary from config.packages.amanzi(config/BuildSystem/config/package.py:930) Called if --with-packagename=0; does nothing by default child config.packages.amanzi 0.000941 ================================================================================ TEST alternateConfigureLibrary from config.packages.MFEM(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/MFEM.py:146) TESTING: alternateConfigureLibrary from config.packages.MFEM(config/BuildSystem/config/packages/MFEM.py:146) Defined make rule "mfem-build" with dependencies "" and code [] Defined make rule "mfem-install" with dependencies "" and code [] child config.packages.MFEM 0.001307 ================================================================================ TEST alternateConfigureLibrary from config.packages.AMReX(/gpfs/alpine/csc314/scratch/adams/petsc/config/BuildSystem/config/packages/AMReX.py:157) TESTING: alternateConfigureLibrary from config.packages.AMReX(config/BuildSystem/config/packages/AMReX.py:157) Defined make rule "amrex-build" with dependencies "" and code [] Defined make rule "amrex-install" with dependencies "" and code [] child config.packages.AMReX 0.001359 ================================================================================ TEST configureRTLDDefault from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:684) TESTING: configureRTLDDefault from PETSc.Configure(config/PETSc/Configure.py:684) All intermediate test results are stored in /tmp/petsc-1iOaOB/PETSc.Configure Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/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(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:509) TESTING: configurePrefetch from PETSc.Configure(config/PETSc/Configure.py:509) Sees if there are any prefetch functions supported Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:3:23: fatal error: xmmintrin.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include int main() { void *v = 0;_mm_prefetch((const char*)v,_MM_HINT_NTA); ; return 0; } Compile failed inside link Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:3:23: fatal error: xmmintrin.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include int main() { void *v = 0;_mm_prefetch(v,_MM_HINT_NTA); ; return 0; } Compile failed inside link Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { void *v = 0;__builtin_prefetch(v,0,0); ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "Prefetch(a,b,c)" to "__builtin_prefetch((a),(b),(c))" Defined "PREFETCH_HINT_NTA" to "0" Defined "PREFETCH_HINT_T0" to "3" Defined "PREFETCH_HINT_T1" to "2" Defined "PREFETCH_HINT_T2" to "1" ================================================================================ TEST configureUnused from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:570) TESTING: configureUnused from PETSc.Configure(config/PETSc/Configure.py:570) Sees if __attribute((unused)) is supported Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:7:5: warning: unused variable 'j' [-Wunused-variable] int j = myfunc(&i); ^ Source: #include "confdefs.h" #include "conffix.h" __attribute((unused)) static int myfunc(__attribute((unused)) void *name){ return 1;} int main() { int i = 0; int j = myfunc(&i); typedef void* atype; __attribute((unused)) atype a; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "UNUSED" to "__attribute((unused))" ================================================================================ TEST configureDeprecated from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:588) TESTING: configureDeprecated from PETSc.Configure(config/PETSc/Configure.py:588) Check if __attribute((deprecated)) is supported Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:3:38: warning: 'myfunc' defined but not used [-Wunused-function] __attribute((deprecated)) static int myfunc(void) { return 1;} ^~~~~~ Source: #include "confdefs.h" #include "conffix.h" __attribute((deprecated)) static int myfunc(void) { return 1;} int main() { ; return 0; } Defined "DEPRECATED_FUNCTION(why)" to "__attribute((deprecated))" Defined "DEPRECATED_TYPEDEF(why)" to "__attribute((deprecated))" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" enum E {oldval __attribute((deprecated)), newval }; int main() { ; return 0; } Defined "DEPRECATED_ENUM(why)" to "__attribute((deprecated))" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" #define TEST _Pragma("GCC warning "Testing _Pragma"") value int main() { ; return 0; } Defined "DEPRECATED_MACRO(why)" to "_Pragma(why)" ================================================================================ TEST configureIsatty from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:582) TESTING: configureIsatty from PETSc.Configure(config/PETSc/Configure.py:582) 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(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:637) TESTING: configureExpect from PETSc.Configure(config/PETSc/Configure.py:637) Sees if the __builtin_expect directive is supported Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__builtin_expect(0,1)) return 1;; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "HAVE_BUILTIN_EXPECT" to "1" ================================================================================ TEST configureAlign from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:621) TESTING: configureAlign from PETSc.Configure(config/PETSc/Configure.py:621) Check if __attribute(aligned) is supported Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" struct mystruct {int myint;} __attribute((aligned(16))); char assert_aligned[(sizeof(struct mystruct)==16)*2-1]; int main() { ; return 0; } Defined "ATTRIBUTEALIGNED(size)" to "__attribute((aligned(size)))" Defined "HAVE_ATTRIBUTEALIGNED" to "1" ================================================================================ TEST configureFunctionName from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:644) TESTING: configureFunctionName from PETSc.Configure(config/PETSc/Configure.py:644) Sees if the compiler supports __func__ or a variant. Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "FUNCTION_NAME_C" to "__func__" Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.setCompilers -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.cc Successful compile: Source: #include "confdefs.h" #include "conffix.h" int main() { if (__func__[0] != 'm') return 1;; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicxx -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "FUNCTION_NAME_CXX" to "__func__" ================================================================================ TEST configureIntptrt from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:662) TESTING: configureIntptrt from PETSc.Configure(config/PETSc/Configure.py:662) Determine what to use for uintptr_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/config.libraries -I/tmp/petsc-1iOaOB/PETSc.Configure -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:6:18: warning: unused variable 'i' [-Wunused-variable] int x; uintptr_t i = (uintptr_t)&x;; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { int x; uintptr_t i = (uintptr_t)&x;; return 0; } Defined "UINTPTR_T" to "uintptr_t" ================================================================================ TEST configureSolaris from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:689) TESTING: configureSolaris from PETSc.Configure(config/PETSc/Configure.py:689) Solaris specific stuff ================================================================================ TEST configureLinux from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:702) TESTING: configureLinux from PETSc.Configure(config/PETSc/Configure.py:702) Linux specific stuff Defined "HAVE_DOUBLE_ALIGN_MALLOC" to "1" ================================================================================ TEST configureWin32 from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:708) TESTING: configureWin32 from PETSc.Configure(config/PETSc/Configure.py:708) Win32 non-cygwin specific stuff Checking for functions [GetComputerName] in library ['Kernel32.lib'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetComputerName() { GetComputerName(NULL,NULL);; } int main() { _check_GetComputerName();; return 0; } Compile failed inside link Checking for functions [GetComputerName] in library ['kernel32'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetComputerName() { GetComputerName(NULL,NULL);; } int main() { _check_GetComputerName();; return 0; } Compile failed inside link Checking for functions [GetUserName] in library ['Advapi32.lib'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetUserName() { GetUserName(NULL,NULL);; } int main() { _check_GetUserName();; return 0; } Compile failed inside link Checking for functions [GetUserName] in library ['advapi32'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetUserName() { GetUserName(NULL,NULL);; } int main() { _check_GetUserName();; return 0; } Compile failed inside link Checking for functions [GetDC] in library ['User32.lib'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetDC() { GetDC(0);; } int main() { _check_GetDC();; return 0; } Compile failed inside link Checking for functions [GetDC] in library ['user32'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_GetDC() { GetDC(0);; } int main() { _check_GetDC();; return 0; } Compile failed inside link Checking for functions [CreateCompatibleDC] in library ['Gdi32.lib'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_CreateCompatibleDC() { CreateCompatibleDC(0);; } int main() { _check_CreateCompatibleDC();; return 0; } Compile failed inside link Checking for functions [CreateCompatibleDC] in library ['gdi32'] [] Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.libraries/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.libraries/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/config.libraries/conftest.c:4:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" /* Override any gcc2 internal prototype to avoid an error. */ #include static void _check_CreateCompatibleDC() { CreateCompatibleDC(0);; } int main() { _check_CreateCompatibleDC();; return 0; } Compile failed inside link Checking for type: int32_t Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/config.types/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/config.types/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/config.types/conftest.c: In function 'main': /tmp/petsc-1iOaOB/config.types/conftest.c:11:9: warning: unused variable 'a' [-Wunused-variable] int32_t a;; ^ Source: #include "confdefs.h" #include "conffix.h" #include #include #include int main() { int32_t a;; return 0; } int32_t found Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:6:7: warning: unused variable 'u' [-Wunused-variable] uid_t u; ^ Source: #include "confdefs.h" #include "conffix.h" #include int main() { uid_t u; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:8:5: warning: unused variable 'a' [-Wunused-variable] int a=R_OK; ^ Source: #include "confdefs.h" #include "conffix.h" #if defined(PETSC_HAVE_UNISTD_H) #include #endif int main() { int a=R_OK; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/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; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:3:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include int main() { LARGE_INTEGER a; DWORD b=a.u.HighPart; ; return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: exit code 1 stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:3:21: fatal error: Windows.h: No such file or directory #include ^ compilation terminated. Source: #include "confdefs.h" #include "conffix.h" #include #include int main() { int flags = O_BINARY;; return 0; } Defined "REPLACE_DIR_SEPARATOR" to "'\\'" Defined "DIR_SEPARATOR" to "'/'" Defined "DIR" to ""/gpfs/alpine/scratch/adams/csc314/petsc"" Defined make macro "wPETSC_DIR" to "/gpfs/alpine/scratch/adams/csc314/petsc" Defined "ARCH" to ""arch-summit-opt-gnu-cuda-omp-2d"" ================================================================================ TEST configureCygwinBrokenPipe from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:780) TESTING: configureCygwinBrokenPipe from PETSc.Configure(config/PETSc/Configure.py:780) 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 Running Executable WITHOUT threads to time it out Executing: uname -s stdout: Linux ================================================================================ TEST configureDefaultArch from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:796) TESTING: configureDefaultArch from PETSc.Configure(config/PETSc/Configure.py:796) ================================================================================ TEST configureScript from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:813) TESTING: configureScript from PETSc.Configure(config/PETSc/Configure.py:813) Output a script in the conf directory which will reproduce the configuration ================================================================================ TEST configureInstall from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:852) TESTING: configureInstall from PETSc.Configure(config/PETSc/Configure.py:852) Setup the directories for installation Defined make rule "print_mesg_after_build" 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(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:864) TESTING: configureGCOV from PETSc.Configure(config/PETSc/Configure.py:864) ================================================================================ TEST configureAtoll from PETSc.Configure(/gpfs/alpine/csc314/scratch/adams/petsc/config/PETSc/Configure.py:565) TESTING: configureAtoll from PETSc.Configure(config/PETSc/Configure.py:565) Checks if atoll exists Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c Possible ERROR while running compiler: stderr: /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c: In function 'main': /tmp/petsc-1iOaOB/PETSc.Configure/conftest.c:7:6: warning: unused variable 'v' [-Wunused-variable] long v = atoll("25"); ^ Source: #include "confdefs.h" #include "conffix.h" #define _POSIX_C_SOURCE 200112L #include int main() { long v = atoll("25"); return 0; } Running Executable WITHOUT threads to time it out Executing: mpicc -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -lstdc++ -ldl Defined "HAVE_ATOLL" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -show stdout: gcc -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm Defined "MPICC_SHOW" to ""gcc -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm"" Defined make macro "CC_FLAGS" to " -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp " Defined "HAVE_CXX" to "1" Defined make macro "CXXPP_FLAGS" to " " Defined make macro "CXX_FLAGS" to " -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp " Defined make macro "CXX_LINKER" to "mpicxx" Defined make macro "CXX_LINKER_FLAGS" to " -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp" Defined make macro "CPP_FLAGS" to "" Defined make macro "PCC" to "mpicc" Defined make macro "PCC_FLAGS" to " -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp " Defined make macro "PCPP_FLAGS" to "" Defined make macro "PFLAGS" to "${CFLAGS}" Defined make macro "PPPFLAGS" to "${CPPFLAGS}" Defined make macro "PY_CFLAGS" to "" Defined make macro "PY_CPPFLAGS" to "" Defined make macro "CC_SUFFIX" to "o" Defined make macro "PCC_LINKER" to "mpicc" Defined make macro "PCC_LINKER_FLAGS" to " -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp" Defined make macro "CC_LINKER_SUFFIX" to "" Defined make macro "FC" to "" Defined make macro "CUDAC_FLAGS" to " -O2 -g -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -Wno-deprecated-gpu-targets" Defined make macro "SL_LINKER" to "mpicc" Defined make macro "SL_LINKER_FLAGS" to "${PCC_LINKER_FLAGS}" Defined make macro "SL_LINKER_SUFFIX" to "so" Defined "SLSUFFIX" to ""so"" Defined make macro "SL_LINKER_LIBS" to "${PETSC_EXTERNAL_LIB_BASIC}" Defined make macro "PETSC_LANGUAGE" to "CONLY" Defined make macro "PETSC_SCALAR" to "real" Defined make macro "PETSC_PRECISION" to "double" Running Executable WITHOUT threads to time it out Executing: CC -VV Defined "USE_SOCKET_VIEWER" to "1" Running Executable WITHOUT threads to time it out Executing: mpicc -c -o /tmp/petsc-1iOaOB/PETSc.Configure/conftest.o -I/tmp/petsc-1iOaOB/config.utilities.closure -I/tmp/petsc-1iOaOB/config.compilers -I/tmp/petsc-1iOaOB/config.headers -I/tmp/petsc-1iOaOB/config.utilities.cacheDetails -I/tmp/petsc-1iOaOB/config.functions -I/tmp/petsc-1iOaOB/config.utilities.featureTestMacros -I/tmp/petsc-1iOaOB/config.utilities.missing -I/tmp/petsc-1iOaOB/PETSc.options.scalarTypes -I/tmp/petsc-1iOaOB/config.packages.MPI -I/tmp/petsc-1iOaOB/config.packages.metis -I/tmp/petsc-1iOaOB/config.packages.BlasLapack -I/tmp/petsc-1iOaOB/config.packages.pthread -I/tmp/petsc-1iOaOB/config.setCompilers -I/tmp/petsc-1iOaOB/PETSc.Configure -I/tmp/petsc-1iOaOB/config.types -I/tmp/petsc-1iOaOB/config.libraries -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp /tmp/petsc-1iOaOB/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_P4EST" to "1" Defined make macro "P4EST_LIB" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lp4est -lsc" Defined make macro "P4EST_INCLUDE" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include" Defined make macro "BLASLAPACK_LIB" to "-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack" Defined make macro "BLASLAPACK_INCLUDE" to "" Defined "HAVE_OPENMP" to "1" Defined make macro "OPENMP_LIB" to "" Defined make macro "OPENMP_INCLUDE" to "" Defined "HAVE_OPENMP" to "1" Defined make macro "OPENMP_LIB" to "" Defined make macro "OPENMP_INCLUDE" to "" Defined "HAVE_PTHREAD" to "1" Defined make macro "PTHREAD_LIB" to "" Defined make macro "PTHREAD_INCLUDE" to "" Defined "HAVE_TRIANGLE" to "1" Defined make macro "TRIANGLE_LIB" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -ltriangle" Defined make macro "TRIANGLE_INCLUDE" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include" Defined "HAVE_HDF5" to "1" Defined make macro "HDF5_LIB" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lhdf5_hl -lhdf5" Defined make macro "HDF5_INCLUDE" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include" Defined "HAVE_PARMETIS" to "1" Defined make macro "PARMETIS_LIB" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lparmetis" Defined make macro "PARMETIS_INCLUDE" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include" Defined "HAVE_METIS" to "1" Defined make macro "METIS_LIB" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lmetis" Defined make macro "METIS_INCLUDE" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include" Defined "HAVE_MATHLIB" to "1" Defined make macro "MATHLIB_LIB" to "-lm" Defined make macro "MATHLIB_INCLUDE" to "" Defined "HAVE_ZLIB" to "1" Defined make macro "ZLIB_LIB" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lz" Defined make macro "ZLIB_INCLUDE" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include" Defined "HAVE_CUDA" to "1" Defined make macro "CUDA_LIB" to "-Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda" Defined make macro "CUDA_INCLUDE" to "-I/sw/summit/cuda/10.1.243/include" Defined "HAVE_REGEX" to "1" Defined make macro "REGEX_LIB" to "" Defined make macro "REGEX_INCLUDE" to "" Defined make macro "MPI_LIB" to "" Defined make macro "MPI_INCLUDE" to "" Defined make macro "PETSC_EXTERNAL_LIB_BASIC" to "-Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lp4est -lsc -lblas -llapack -ltriangle -lhdf5_hl -lhdf5 -lparmetis -lmetis -lm -lz -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda -lstdc++ -ldl" Defined make macro "PETSC_CC_INCLUDES" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/sw/summit/cuda/10.1.243/include" Defined make macro "PETSC_CC_INCLUDES_INSTALL" to "-I/gpfs/alpine/scratch/adams/csc314/petsc/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/sw/summit/cuda/10.1.243/include" Defined "LIB_DIR" to ""/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/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}/${PETSC_ARCH}/lib -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lpetsc -lp4est -lsc -lblas -llapack -ltriangle -lhdf5_hl -lhdf5 -lparmetis -lmetis -lm -lz -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda -lstdc++ -ldl" Defined "USE_SINGLE_LIBRARY" to "1" Defined make macro "PETSC_SYS_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_VEC_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_MAT_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_DM_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_KSP_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_SNES_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_TS_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_TAO_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_CHARACTERISTIC_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_LIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "PETSC_CONTRIB" to "${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB}" Defined make macro "CONFIGURE_OPTIONS" to "--with-fc=0 --COPTFLAGS=\"-g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2\" --CXXOPTFLAGS=\"-g -O2 -fPIC -fopenmp\" --FOPTFLAGS=\"-g -O2 -fPIC -fopenmp\" --CUDAOPTFLAGS=\"-O2 -g\" --with-ssl=0 --with-batch=0 --with-cxx=mpicxx --with-mpiexec=\"jsrun -g1\" --with-cuda=1 --with-cudac=nvcc --download-p4est=1 --download-zlib --download-hdf5=1 --download-metis --download-superlu_dist-commit=HEAD --with-make-np=16 --download-parmetis --download-triangle --with-blaslapack-lib=\"-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack\" --with-cc=mpicc --with-shared-libraries=1 --with-x=0 --with-64-bit-indices=0 --with-debugging=1 PETSC_ARCH=arch-summit-opt-gnu-cuda-omp-2d --with-openmp=1 --with-threadsaftey=1 --with-log=1 PETSC_DIR=/gpfs/alpine/scratch/adams/csc314/petsc" ================================================================================ child PETSc.Configure 4.592903 child sum 98.122787 child total 98.156429 **** arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/petscvariables **** MPICXX_SHOW = g++ -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm C_VERSION = gcc (GCC) 6.4.0 CUDA_VERSION = nvcc: NVIDIA (R) Cuda compiler driver C_DEPFLAGS = -MMD -MP MPICC_SHOW = Unavailable AR_FLAGS = cr CXX_DEPFLAGS = -MMD -MP Cxx_VERSION = g++ (GCC) 6.4.0 FAST_AR_FLAGS = Scq PETSC_LANGUAGE = CONLY TRIANGLE_INCLUDE = -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include SL_LINKER_SUFFIX = so SL_LINKER = mpicc CC_FLAGS = -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp PETSC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_PRECISION = double PETSC_LIB_BASIC = -lpetsc OPENMP_LIB = PETSC_DM_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} FC = PETSC_SNES_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} BLASLAPACK_LIB = -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack PETSC_MAT_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PCC = mpicc SL_LINKER_LIBS = ${PETSC_EXTERNAL_LIB_BASIC} SHLIBS = libpetsc HDF5_INCLUDE = -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include MPI_LIB = REGEX_INCLUDE = PETSC_EXTERNAL_LIB_BASIC = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lp4est -lsc -lblas -llapack -ltriangle -lhdf5_hl -lhdf5 -lparmetis -lmetis -lm -lz -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda -lstdc++ -ldl HDF5_LIB = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lhdf5_hl -lhdf5 PY_CFLAGS = SL_LINKER_FLAGS = ${PCC_LINKER_FLAGS} CUDAC_FLAGS = -O2 -g -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -Wno-deprecated-gpu-targets MATHLIB_LIB = -lm PARMETIS_LIB = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lparmetis CC_SUFFIX = o OPENMP_INCLUDE = CONFIGURE_OPTIONS = --with-fc=0 --COPTFLAGS=\"-g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2\" --CXXOPTFLAGS=\"-g -O2 -fPIC -fopenmp\" --FOPTFLAGS=\"-g -O2 -fPIC -fopenmp\" --CUDAOPTFLAGS=\"-O2 -g\" --with-ssl=0 --with-batch=0 --with-cxx=mpicxx --with-mpiexec=\"jsrun -g1\" --with-cuda=1 --with-cudac=nvcc --download-p4est=1 --download-zlib --download-hdf5=1 --download-metis --download-superlu_dist-commit=HEAD --with-make-np=16 --download-parmetis --download-triangle --with-blaslapack-lib=\"-L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack\" --with-cc=mpicc --with-shared-libraries=1 --with-x=0 --with-64-bit-indices=0 --with-debugging=1 PETSC_ARCH=arch-summit-opt-gnu-cuda-omp-2d --with-openmp=1 --with-threadsaftey=1 --with-log=1 PETSC_DIR=/gpfs/alpine/scratch/adams/csc314/petsc MATHLIB_INCLUDE = PETSC_CHARACTERISTIC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} METIS_INCLUDE = -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include LIBNAME = ${INSTALL_LIB_DIR}/libpetsc.${AR_LIB_SUFFIX} CXXPP_FLAGS = PTHREAD_LIB = PETSC_SCALAR = real TRIANGLE_LIB = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -ltriangle CPP_FLAGS = PETSC_WITH_EXTERNAL_LIB = -L${PETSC_DIR}/${PETSC_ARCH}/lib -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lpetsc -lp4est -lsc -lblas -llapack -ltriangle -lhdf5_hl -lhdf5 -lparmetis -lmetis -lm -lz -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda -lstdc++ -ldl PETSC_KSP_LIB_BASIC = -lpetsc PETSC_CC_INCLUDES_INSTALL = -I/gpfs/alpine/scratch/adams/csc314/petsc/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/sw/summit/cuda/10.1.243/include PPPFLAGS = ${CPPFLAGS} PETSC_KSP_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} CXX_FLAGS = -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp PY_CPPFLAGS = PCC_LINKER_FLAGS = -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp PETSC_CONTRIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} CXX_LINKER_FLAGS = -fopenmp -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp PCC_LINKER = mpicc PETSC_SYS_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PCC_FLAGS = -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp CUDA_LIB = -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda PTHREAD_INCLUDE = METIS_LIB = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lmetis P4EST_INCLUDE = -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include CXX_LINKER = mpicxx PETSC_TS_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} PETSC_TAO_LIB_BASIC = -lpetsc BLASLAPACK_INCLUDE = CUDA_INCLUDE = -I/sw/summit/cuda/10.1.243/include PETSC_TS_LIB_BASIC = -lpetsc PETSC_VEC_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} CC_LINKER_SUFFIX = PFLAGS = ${CFLAGS} PARMETIS_INCLUDE = -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include PCPP_FLAGS = P4EST_LIB = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lp4est -lsc wPETSC_DIR = /gpfs/alpine/scratch/adams/csc314/petsc ZLIB_INCLUDE = -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include PETSC_TAO_LIB = ${C_SH_LIB_PATH} ${PETSC_WITH_EXTERNAL_LIB} MPI_INCLUDE = REGEX_LIB = PETSC_CC_INCLUDES = -I/gpfs/alpine/scratch/adams/csc314/petsc/include -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include -I/sw/summit/cuda/10.1.243/include ZLIB_LIB = -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lz SHELL = /usr/bin/sh GREP = /usr/bin/grep MV = /usr/bin/mv PYTHON = /usr/bin/python MKDIR = /usr/bin/mkdir -p SEDINPLACE = /usr/bin/sed -i M4 = /usr/bin/m4 SED = /usr/bin/sed DIFF = /usr/bin/diff -w RM = /usr/bin/rm -f CP = /usr/bin/cp CC_LINKER_SLFLAG = -Wl,-rpath, CXXPP = mpicxx -E CC = mpicc RANLIB = /usr/bin/ranlib DYNAMICLINKER = mpicc CXX = mpicxx AR = /usr/bin/ar CUDAC = nvcc CPP = mpicc -E AR_LIB_SUFFIX = a LD_SHARED = mpicc CUDAPP = nvcc -E CLANGUAGE = C GIT = git PREFIXDIR = /gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d PETSC_SCALAR_SIZE = 64 PETSC_INDEX_SIZE = 32 OMAKE_PRINTDIR = /usr/bin/gmake --print-directory MAKE_NP = 16 NPMAX = 128 MAKE = /usr/bin/gmake MAKE_PAR_OUT_FLG = OMAKE = /usr/bin/gmake --no-print-directory MAKE_LOAD = 166.4 MAKE_TEST_NP = 49 SL_LINKER_FUNCTION = -shared -Wl,-soname,$(call SONAME_FUNCTION,$(notdir $(1)),$(2)) SONAME_FUNCTION = $(1).so.$(2) BUILDSHAREDLIB = yes GDB = /usr/bin/gdb DSYMUTIL = true MPIEXEC = jsrun -g1 CMAKE = /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/cmake CTEST = /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/ctest SYSTEMNVCC = /sw/summit/cuda/10.1.243/bin/nvcc **** arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/petscrules **** print_mesg_after_build: -@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: shared_linux amrex-build: amrex-install: mfem-build: mfem-install: hpddm-build: hpddm-install: slepc-build: slepc-install: libmesh-build: libmesh-install: mpi4py-build: mpi4py-install: petsc4py-build: petsc4py-install: **** arch-summit-opt-gnu-cuda-omp-2d/include/petscconf.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #define IS_COLORING_MAX USHRT_MAX #define MPIU_COLORING_VALUE MPI_UNSIGNED_SHORT #define PETSC_ARCH "arch-summit-opt-gnu-cuda-omp-2d" #define PETSC_ATTRIBUTEALIGNED(size) __attribute((aligned(size))) #define PETSC_DEPRECATED_ENUM(why) __attribute((deprecated)) #define PETSC_DEPRECATED_FUNCTION(why) __attribute((deprecated)) #define PETSC_DEPRECATED_MACRO(why) _Pragma(why) #define PETSC_DEPRECATED_TYPEDEF(why) __attribute((deprecated)) #define PETSC_DIR "/gpfs/alpine/scratch/adams/csc314/petsc" #define PETSC_DIR_SEPARATOR '/' #define PETSC_FUNCTION_NAME_C __func__ #define PETSC_FUNCTION_NAME_CXX __func__ #define PETSC_HAVE_ATOLL 1 #define PETSC_HAVE_ATTRIBUTEALIGNED 1 #define PETSC_HAVE_BUILTIN_EXPECT 1 #define PETSC_HAVE_CUDA 1 #define PETSC_HAVE_CXX 1 #define PETSC_HAVE_DOUBLE_ALIGN_MALLOC 1 #define PETSC_HAVE_HDF5 1 #define PETSC_HAVE_METIS 1 #define PETSC_HAVE_OPENMP 1 #define PETSC_HAVE_P4EST 1 #define PETSC_HAVE_PARMETIS 1 #define PETSC_HAVE_PTHREAD 1 #define PETSC_HAVE_REGEX 1 #define PETSC_HAVE_SO_REUSEADDR 1 #define PETSC_HAVE_TRIANGLE 1 #define PETSC_LIB_DIR "/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib" #define PETSC_MPICC_SHOW "gcc -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -pthread -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/lib -lmpiprofilesupport -lmpi_ibm" #define PETSC_PREFETCH_HINT_NTA 0 #define PETSC_PREFETCH_HINT_T0 3 #define PETSC_PREFETCH_HINT_T1 2 #define PETSC_PREFETCH_HINT_T2 1 #define PETSC_Prefetch(a,b,c) __builtin_prefetch((a),(b),(c)) #define PETSC_REPLACE_DIR_SEPARATOR '\\' #define PETSC_SLSUFFIX "so" #define PETSC_UINTPTR_T uintptr_t #define PETSC_UNUSED __attribute((unused)) #define PETSC_USE_ISATTY 1 #define PETSC_USE_SINGLE_LIBRARY 1 #define PETSC_USE_SOCKET_VIEWER 1 #define PETSC_CLANGUAGE_C 1 #define PETSC_HAVE_ERF 1 #define PETSC_HAVE_FENV_H 1 #define PETSC_HAVE_LGAMMA 1 #define PETSC_HAVE_LOG2 1 #define PETSC_HAVE_TGAMMA 1 #define PETSC_CXX_INLINE inline #define PETSC_CXX_RESTRICT __restrict #define PETSC_C_INLINE inline #define PETSC_C_RESTRICT __restrict #define PETSC_HAVE_C99 1 #define PETSC_HAVE_CXX_DIALECT_CXX11 1 #define PETSC_HAVE_CXX_DIALECT_CXX14 1 #define PETSC_HAVE_RTLD_GLOBAL 1 #define PETSC_HAVE_RTLD_LAZY 1 #define PETSC_HAVE_RTLD_LOCAL 1 #define PETSC_HAVE_RTLD_NOW 1 #define PETSC_HAVE_DLFCN_H 1 #define PETSC_HAVE_FCNTL_H 1 #define PETSC_HAVE_FLOAT_H 1 #define PETSC_HAVE_INTTYPES_H 1 #define PETSC_HAVE_MALLOC_H 1 #define PETSC_HAVE_NETDB_H 1 #define PETSC_HAVE_NETINET_IN_H 1 #define PETSC_HAVE_PTHREAD_H 1 #define PETSC_HAVE_PWD_H 1 #define PETSC_HAVE_SETJMP_H 1 #define PETSC_HAVE_STDINT_H 1 #define PETSC_HAVE_STRINGS_H 1 #define PETSC_HAVE_SYS_PARAM_H 1 #define PETSC_HAVE_SYS_PROCFS_H 1 #define PETSC_HAVE_SYS_RESOURCE_H 1 #define PETSC_HAVE_SYS_SOCKET_H 1 #define PETSC_HAVE_SYS_SYSINFO_H 1 #define PETSC_HAVE_SYS_TIMES_H 1 #define PETSC_HAVE_SYS_TIME_H 1 #define PETSC_HAVE_SYS_TYPES_H 1 #define PETSC_HAVE_SYS_UTSNAME_H 1 #define PETSC_HAVE_SYS_WAIT_H 1 #define PETSC_HAVE_TIME_H 1 #define PETSC_HAVE_UNISTD_H 1 #define PETSC_HAVE_ISINF 1 #define PETSC_HAVE_ISNAN 1 #define PETSC_USE_REAL_DOUBLE 1 #define PETSC_HAVE_C99_COMPLEX 1 #define PETSC_HAVE_CXX_COMPLEX 1 #define PETSC_HAVE_STRUCT_SIGACTION 1 #define PETSC_SIZEOF_ENUM 4 #define PETSC_SIZEOF_INT 4 #define PETSC_SIZEOF_LONG 8 #define PETSC_SIZEOF_LONG_LONG 8 #define PETSC_SIZEOF_SHORT 2 #define PETSC_SIZEOF_SIZE_T 8 #define PETSC_SIZEOF_VOID_P 8 #define PETSC_USE_VISIBILITY_C 1 #define PETSC_USE_VISIBILITY_CXX 1 #define PETSC_HAVE_ACCESS 1 #define PETSC_HAVE_BZERO 1 #define PETSC_HAVE_CLOCK 1 #define PETSC_HAVE_DLCLOSE 1 #define PETSC_HAVE_DLERROR 1 #define PETSC_HAVE_DLOPEN 1 #define PETSC_HAVE_DLSYM 1 #define PETSC_HAVE_DRAND48 1 #define PETSC_HAVE_FORK 1 #define PETSC_HAVE_GETCWD 1 #define PETSC_HAVE_GETDOMAINNAME 1 #define PETSC_HAVE_GETHOSTBYNAME 1 #define PETSC_HAVE_GETHOSTNAME 1 #define PETSC_HAVE_GETPAGESIZE 1 #define PETSC_HAVE_GETRUSAGE 1 #define PETSC_HAVE_GETWD 1 #define PETSC_HAVE_LSEEK 1 #define PETSC_HAVE_MEMALIGN 1 #define PETSC_HAVE_MEMMOVE 1 #define PETSC_HAVE_MMAP 1 #define PETSC_HAVE_NANOSLEEP 1 #define PETSC_HAVE_POPEN 1 #define PETSC_HAVE_RAND 1 #define PETSC_HAVE_READLINK 1 #define PETSC_HAVE_REALPATH 1 #define PETSC_HAVE_SLEEP 1 #define PETSC_HAVE_SNPRINTF 1 #define PETSC_HAVE_SOCKET 1 #define PETSC_HAVE_STRCASECMP 1 #define PETSC_HAVE_SYSINFO 1 #define PETSC_HAVE_TIME 1 #define PETSC_HAVE_UNAME 1 #define PETSC_HAVE_USLEEP 1 #define PETSC_HAVE_VA_COPY 1 #define PETSC_HAVE_VSNPRINTF 1 #define PETSC_SIGNAL_CAST #define PETSC_HAVE_DYNAMIC_LIBRARIES 1 #define PETSC_USE_SHARED_LIBRARIES 1 #define PETSC_USE_DEBUGGER "gdb" #define PETSC_VERSION_BRANCH_GIT "mark/feature-xgc-interface-rebase-v2" #define PETSC_VERSION_DATE_GIT "2020-04-19 12:55:19 -0400" #define PETSC_VERSION_GIT "v3.13-164-ge4ca43a" #define PETSC_BLASLAPACK_UNDERSCORE 1 #define PETSC_HAVE_MPIIO 1 #define PETSC_HAVE_MPI_COMBINER_CONTIGUOUS 1 #define PETSC_HAVE_MPI_COMBINER_DUP 1 #define PETSC_HAVE_MPI_COMBINER_NAMED 1 #define PETSC_HAVE_MPI_EXSCAN 1 #define PETSC_HAVE_MPI_FINALIZED 1 #define PETSC_HAVE_MPI_GET_ACCUMULATE 1 #define PETSC_HAVE_MPI_GET_LIBRARY_VERSION 1 #define PETSC_HAVE_MPI_GPU_AWARE 1 #define PETSC_HAVE_MPI_IALLREDUCE 1 #define PETSC_HAVE_MPI_IBARRIER 1 #define PETSC_HAVE_MPI_INIT_THREAD 1 #define PETSC_HAVE_MPI_IN_PLACE 1 #define PETSC_HAVE_MPI_NEIGHBORHOOD_COLLECTIVES 1 #define PETSC_HAVE_MPI_NONBLOCKING_COLLECTIVES 1 #define PETSC_HAVE_MPI_ONE_SIDED 1 #define PETSC_HAVE_MPI_PROCESS_SHARED_MEMORY 1 #define PETSC_HAVE_MPI_REDUCE_LOCAL 1 #define PETSC_HAVE_MPI_REDUCE_SCATTER 1 #define PETSC_HAVE_MPI_REDUCE_SCATTER_BLOCK 1 #define PETSC_HAVE_MPI_RGET 1 #define PETSC_HAVE_MPI_TYPE_DUP 1 #define PETSC_HAVE_MPI_TYPE_GET_ENVELOPE 1 #define PETSC_HAVE_MPI_WIN_CREATE 1 #define PETSC_HAVE_OMPI_MAJOR_VERSION 10 #define PETSC_HAVE_OMPI_MINOR_VERSION 03 #define PETSC_HAVE_OMPI_RELEASE_VERSION 01 #define PETSC_HAVE_PTHREAD_BARRIER_T 1 #define PETSC_HAVE_SCHED_CPU_SET_T 1 #define PETSC_HAVE_SYS_SYSCTL_H 1 #define PETSC_Alignx(a,b) #define PETSC_IS_COLOR_VALUE_TYPE short #define PETSC_IS_COLOR_VALUE_TYPE_F integer2 #define PETSC_USE_AVX512_KERNELS 1 #define PETSC_USE_BACKWARD_LOOP 1 #define PETSC_USE_CTABLE 1 #define PETSC_USE_DEBUG 1 #define PETSC_USE_INFO 1 #define PETSC_USE_LOG 1 #define PETSC_MEMALIGN 16 #define PETSC_LEVEL1_DCACHE_LINESIZE 32 #define PETSC__BSD_SOURCE 1 #define PETSC__DEFAULT_SOURCE 1 #define PETSC__GNU_SOURCE 1 #define PETSC_USE_PROC_FOR_SIZE 1 #define PETSC_HDF5_HAVE_PARALLEL 1 #define PETSC_HDF5_HAVE_ZLIB 1 #define PETSC_HAVE_CUDA 1 #define PETSC_PYTHON_EXE "/usr/bin/python" #endif **** arch-summit-opt-gnu-cuda-omp-2d/include/petscfix.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #if defined(__cplusplus) extern "C" { } #else #endif #endif **** arch-summit-opt-gnu-cuda-omp-2d/include/petscpkg_version.h **** #if !defined(INCLUDED_UNKNOWN) #define INCLUDED_UNKNOWN #define PETSC_PKG_MPI_VERSION_MAJOR 3 #define PETSC_PKG_MPI_VERSION_MINOR 0 #define PETSC_PKG_MPI_VERSION_SUBMINOR 0 #define PETSC_PKG_MPI_VERSION_ PETSC_PKG_MPI_VERSION_EQ #define PETSC_PKG_MPI_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_MPI_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_MPI_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_MPI_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_MPI_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_MPI_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_MPI_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_MPI_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_MPI_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_MPI_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_MPI_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_MPI_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_MPI_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_MPI_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_MPI_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_MPI_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_MPI_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_HDF5_VERSION_MAJOR 1 #define PETSC_PKG_HDF5_VERSION_MINOR 12 #define PETSC_PKG_HDF5_VERSION_SUBMINOR 0 #define PETSC_PKG_HDF5_VERSION_ PETSC_PKG_HDF5_VERSION_EQ #define PETSC_PKG_HDF5_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_HDF5_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_HDF5_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_HDF5_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_HDF5_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_HDF5_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_HDF5_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_HDF5_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_HDF5_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_HDF5_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_HDF5_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_HDF5_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_HDF5_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_HDF5_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_HDF5_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_HDF5_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_HDF5_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_CUDA_VERSION_MAJOR 10 #define PETSC_PKG_CUDA_VERSION_MINOR 1 #define PETSC_PKG_CUDA_VERSION_SUBMINOR 0 #define PETSC_PKG_CUDA_VERSION_ PETSC_PKG_CUDA_VERSION_EQ #define PETSC_PKG_CUDA_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_CUDA_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_CUDA_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_CUDA_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_CUDA_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_CUDA_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_CUDA_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_CUDA_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_CUDA_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_CUDA_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_CUDA_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_CUDA_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_CUDA_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_CUDA_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_CUDA_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_CUDA_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_CUDA_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_METIS_VERSION_MAJOR 5 #define PETSC_PKG_METIS_VERSION_MINOR 1 #define PETSC_PKG_METIS_VERSION_SUBMINOR 0 #define PETSC_PKG_METIS_VERSION_ PETSC_PKG_METIS_VERSION_EQ #define PETSC_PKG_METIS_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_METIS_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_METIS_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_METIS_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_METIS_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_METIS_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_METIS_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_METIS_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_METIS_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_METIS_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_METIS_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_METIS_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_METIS_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_METIS_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_METIS_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_METIS_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_METIS_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_PARMETIS_VERSION_MAJOR 4 #define PETSC_PKG_PARMETIS_VERSION_MINOR 0 #define PETSC_PKG_PARMETIS_VERSION_SUBMINOR 3 #define PETSC_PKG_PARMETIS_VERSION_ PETSC_PKG_PARMETIS_VERSION_EQ #define PETSC_PKG_PARMETIS_VERSION_EQ(MAJOR,MINOR,SUBMINOR) \ ((PETSC_PKG_PARMETIS_VERSION_MAJOR == (MAJOR)) && \ (PETSC_PKG_PARMETIS_VERSION_MINOR == (MINOR)) && \ (PETSC_PKG_PARMETIS_VERSION_SUBMINOR == (SUBMINOR))) #define PETSC_PKG_PARMETIS_VERSION_LT(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_PARMETIS_VERSION_MAJOR < (MAJOR) || \ (PETSC_PKG_PARMETIS_VERSION_MAJOR == (MAJOR) && \ (PETSC_PKG_PARMETIS_VERSION_MINOR < (MINOR) || \ (PETSC_PKG_PARMETIS_VERSION_MINOR == (MINOR) && \ (PETSC_PKG_PARMETIS_VERSION_SUBMINOR < (SUBMINOR)))))) #define PETSC_PKG_PARMETIS_VERSION_LE(MAJOR,MINOR,SUBMINOR) \ (PETSC_PKG_PARMETIS_VERSION_LT(MAJOR,MINOR,SUBMINOR) || \ PETSC_PKG_PARMETIS_VERSION_EQ(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_PARMETIS_VERSION_GT(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_PARMETIS_VERSION_LE(MAJOR,MINOR,SUBMINOR)) #define PETSC_PKG_PARMETIS_VERSION_GE(MAJOR,MINOR,SUBMINOR) \ ( 0 == PETSC_PKG_PARMETIS_VERSION_LT(MAJOR,MINOR,SUBMINOR)) #endif Attempting to save configure hash file: arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/configure-hash Saved configure hash file: arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/configure-hash Configure Actions These are the actions performed by configure on the filesystem ----------------------------------------------------------------- PETSc: Build : Set default architecture to arch-summit-opt-gnu-cuda-omp-2d in lib/petsc/conf/petscvariables File creation : Created arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/reconfigure-arch-summit-opt-gnu-cuda-omp-2d.py for automatic reconfiguration Framework: RDict update : Substitutions were stored in RDict with parent None File creation : Created makefile configure header arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/petscvariables File creation : Created makefile configure header arch-summit-opt-gnu-cuda-omp-2d/lib/petsc/conf/petscrules File creation : Created configure header arch-summit-opt-gnu-cuda-omp-2d/include/petscconf.h File creation : Created C specific configure header arch-summit-opt-gnu-cuda-omp-2d/include/petscfix.h File creation : Created configure pkg header arch-summit-opt-gnu-cuda-omp-2d/include/petscpkg_version.h Compilers: C Compiler: mpicc -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp Version: gcc (GCC) 6.4.0 CUDA Compiler: nvcc -O2 -g -I/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/spectrum-mpi-10.3.1.2-20200121-awz2q5brde7wgdqqw4ugalrkukeub4eb/include -Wno-deprecated-gpu-targets Version: nvcc: NVIDIA (R) Cuda compiler driver C++ Compiler: mpicxx -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O2 -fPIC -fopenmp -fopenmp Version: g++ (GCC) 6.4.0 Linkers: Shared linker: mpicc -fopenmp -shared -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp Dynamic linker: mpicc -fopenmp -shared -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g -O0 -fPIC -fopenmp -DFP_DIM=2 -DFP_MAX_SPECIES=2 -fopenmp Libraries linked against: -lstdc++ -ldl make: Version: 3.82 /usr/bin/gmake BlasLapack: Library: -L/autofs/nccs-svm1_sw/summit/.swci/1-compute/opt/spack/20180914/linux-rhel7-ppc64le/gcc-6.4.0/netlib-lapack-3.8.0-wcabdyqhdi5rooxbkqa6x5d7hxyxwdkm/lib64 -lblas -llapack Unknown if this uses OpenMP (try export OMP_NUM_THREADS=<1-4> yourprogram -log_view) uses 4 byte integers MPI: Version: 3 Mpiexec: jsrun -g1 OMPI_VERSION: 10.03.01 openmp: Version: 201511 pthread: zlib: Includes: -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include Library: -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lz hdf5: Version: 1.12.0 Includes: -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include Library: -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lhdf5_hl -lhdf5 cmake: Version: 3.15.2 /autofs/nccs-svm1_sw/summit/.swci/0-core/opt/spack/20180914/linux-rhel7-ppc64le/gcc-4.8.5/cmake-3.15.2-xit2o3iepxvqbyku77lwcugufilztu7t/bin/cmake cuda: Version: 10.1 Includes: -I/sw/summit/cuda/10.1.243/include Library: -Wl,-rpath,/sw/summit/cuda/10.1.243/lib64 -L/sw/summit/cuda/10.1.243/lib64 -lcufft -lcublas -lcudart -lcusparse -lcusolver -lcuda metis: Version: 5.1.0 Includes: -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include Library: -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lmetis parmetis: Version: 4.0.3 Includes: -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include Library: -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lparmetis regex: Triangle: Includes: -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include Library: -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -ltriangle p4est: Includes: -I/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/include Library: -Wl,-rpath,/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -L/gpfs/alpine/scratch/adams/csc314/petsc/arch-summit-opt-gnu-cuda-omp-2d/lib -lp4est -lsc Language used to compile PETSc: C PETSc: PETSC_ARCH: arch-summit-opt-gnu-cuda-omp-2d PETSC_DIR: /gpfs/alpine/scratch/adams/csc314/petsc Scalar type: real Precision: double Integer size: 4 bytes shared libraries: enabled Memory alignment from malloc(): 16 bytes xxx=========================================================================xxx Configure stage complete. Now build PETSc libraries with: make PETSC_DIR=/gpfs/alpine/scratch/adams/csc314/petsc PETSC_ARCH=arch-summit-opt-gnu-cuda-omp-2d all xxx=========================================================================xxx ================================================================================ Finishing configure run at Sun, 19 Apr 2020 18:00:06 -0400 ================================================================================